-- dump date 20140619_233432 -- class Genbank::misc_feature -- table misc_feature_note -- id note 383629000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 383629000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 383629000003 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 383629000004 Walker A motif; other site 383629000005 ATP binding site [chemical binding]; other site 383629000006 Walker B motif; other site 383629000007 arginine finger; other site 383629000008 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 383629000009 DnaA box-binding interface [nucleotide binding]; other site 383629000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 383629000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 383629000012 putative DNA binding surface [nucleotide binding]; other site 383629000013 dimer interface [polypeptide binding]; other site 383629000014 beta-clamp/clamp loader binding surface; other site 383629000015 beta-clamp/translesion DNA polymerase binding surface; other site 383629000016 recombination protein F; Reviewed; Region: recF; PRK00064 383629000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629000018 Walker A/P-loop; other site 383629000019 ATP binding site [chemical binding]; other site 383629000020 Q-loop/lid; other site 383629000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629000022 ABC transporter signature motif; other site 383629000023 Walker B; other site 383629000024 D-loop; other site 383629000025 H-loop/switch region; other site 383629000026 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629000027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629000028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629000029 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 383629000030 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 383629000031 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 383629000032 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 383629000033 Mg2+ binding site [ion binding]; other site 383629000034 G-X-G motif; other site 383629000035 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 383629000036 anchoring element; other site 383629000037 dimer interface [polypeptide binding]; other site 383629000038 ATP binding site [chemical binding]; other site 383629000039 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 383629000040 active site 383629000041 putative metal-binding site [ion binding]; other site 383629000042 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 383629000043 Domain of unknown function (DUF955); Region: DUF955; pfam06114 383629000044 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629000045 EamA-like transporter family; Region: EamA; pfam00892 383629000046 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 383629000047 dimer interface [polypeptide binding]; other site 383629000048 putative tRNA-binding site [nucleotide binding]; other site 383629000049 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 383629000050 tartrate dehydrogenase; Region: TTC; TIGR02089 383629000051 succinic semialdehyde dehydrogenase; Region: PLN02278 383629000052 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 383629000053 tetramerization interface [polypeptide binding]; other site 383629000054 NAD(P) binding site [chemical binding]; other site 383629000055 catalytic residues [active] 383629000056 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629000057 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 383629000058 putative DNA binding site [nucleotide binding]; other site 383629000059 putative Zn2+ binding site [ion binding]; other site 383629000060 AsnC family; Region: AsnC_trans_reg; pfam01037 383629000061 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 383629000062 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 383629000063 motif II; other site 383629000064 hypothetical protein; Provisional; Region: PRK05965 383629000065 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 383629000066 inhibitor-cofactor binding pocket; inhibition site 383629000067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629000068 catalytic residue [active] 383629000069 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629000070 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629000071 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629000072 DctM-like transporters; Region: DctM; pfam06808 383629000073 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 383629000074 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629000075 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629000076 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629000077 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 383629000078 active site 383629000079 DctM-like transporters; Region: DctM; pfam06808 383629000080 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 383629000081 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 383629000082 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 383629000083 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629000084 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 383629000085 FAD binding domain; Region: FAD_binding_4; pfam01565 383629000086 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 383629000087 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 383629000088 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 383629000089 Ion channel; Region: Ion_trans_2; pfam07885 383629000090 TrkA-N domain; Region: TrkA_N; pfam02254 383629000091 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 383629000092 Predicted membrane protein [Function unknown]; Region: COG3766 383629000093 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 383629000094 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 383629000095 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 383629000096 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 383629000097 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 383629000098 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629000099 substrate binding pocket [chemical binding]; other site 383629000100 membrane-bound complex binding site; other site 383629000101 hinge residues; other site 383629000102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 383629000103 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 383629000104 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629000105 substrate binding pocket [chemical binding]; other site 383629000106 membrane-bound complex binding site; other site 383629000107 hinge residues; other site 383629000108 hypothetical protein; Provisional; Region: PRK07481 383629000109 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 383629000110 inhibitor-cofactor binding pocket; inhibition site 383629000111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629000112 catalytic residue [active] 383629000113 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 383629000114 Transcriptional regulator [Transcription]; Region: IclR; COG1414 383629000115 Bacterial transcriptional regulator; Region: IclR; pfam01614 383629000116 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 383629000117 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 383629000118 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 383629000119 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629000120 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 383629000121 NAD(P) binding site [chemical binding]; other site 383629000122 catalytic residues [active] 383629000123 hypothetical protein; Provisional; Region: PRK02399 383629000124 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 383629000125 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 383629000126 putative substrate binding pocket [chemical binding]; other site 383629000127 trimer interface [polypeptide binding]; other site 383629000128 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 383629000129 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 383629000130 NAD binding site [chemical binding]; other site 383629000131 catalytic residues [active] 383629000132 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 383629000133 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 383629000134 tetramer interface [polypeptide binding]; other site 383629000135 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 383629000136 tetramer interface [polypeptide binding]; other site 383629000137 active site 383629000138 metal binding site [ion binding]; metal-binding site 383629000139 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 383629000140 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 383629000141 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 383629000142 Hint domain; Region: Hint_2; pfam13403 383629000143 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 383629000144 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 383629000145 active site residue [active] 383629000146 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 383629000147 Isochorismatase family; Region: Isochorismatase; pfam00857 383629000148 catalytic triad [active] 383629000149 metal binding site [ion binding]; metal-binding site 383629000150 conserved cis-peptide bond; other site 383629000151 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 383629000152 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 383629000153 putative active site [active] 383629000154 heme pocket [chemical binding]; other site 383629000155 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 383629000156 dimer interface [polypeptide binding]; other site 383629000157 phosphorylation site [posttranslational modification] 383629000158 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 383629000159 ATP binding site [chemical binding]; other site 383629000160 Mg2+ binding site [ion binding]; other site 383629000161 G-X-G motif; other site 383629000162 Response regulator receiver domain; Region: Response_reg; pfam00072 383629000163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629000164 active site 383629000165 phosphorylation site [posttranslational modification] 383629000166 intermolecular recognition site; other site 383629000167 dimerization interface [polypeptide binding]; other site 383629000168 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 383629000169 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 383629000170 active site 383629000171 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629000172 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 383629000173 NAD(P) binding site [chemical binding]; other site 383629000174 catalytic residues [active] 383629000175 catalytic residues [active] 383629000176 Predicted acetyltransferase [General function prediction only]; Region: COG5628 383629000177 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 383629000178 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629000179 Walker A/P-loop; other site 383629000180 ATP binding site [chemical binding]; other site 383629000181 Q-loop/lid; other site 383629000182 ABC transporter signature motif; other site 383629000183 Walker B; other site 383629000184 D-loop; other site 383629000185 H-loop/switch region; other site 383629000186 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629000187 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629000188 Walker A/P-loop; other site 383629000189 ATP binding site [chemical binding]; other site 383629000190 Q-loop/lid; other site 383629000191 ABC transporter signature motif; other site 383629000192 Walker B; other site 383629000193 D-loop; other site 383629000194 H-loop/switch region; other site 383629000195 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629000196 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 383629000197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629000198 dimer interface [polypeptide binding]; other site 383629000199 ABC-ATPase subunit interface; other site 383629000200 putative PBP binding loops; other site 383629000201 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629000202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629000203 dimer interface [polypeptide binding]; other site 383629000204 conserved gate region; other site 383629000205 putative PBP binding loops; other site 383629000206 ABC-ATPase subunit interface; other site 383629000207 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 383629000208 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 383629000209 active site 383629000210 Zn binding site [ion binding]; other site 383629000211 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629000212 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 383629000213 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 383629000214 active site 383629000215 oligomerization interface [polypeptide binding]; other site 383629000216 metal binding site [ion binding]; metal-binding site 383629000217 pantoate--beta-alanine ligase; Region: panC; TIGR00018 383629000218 Pantoate-beta-alanine ligase; Region: PanC; cd00560 383629000219 active site 383629000220 ATP-binding site [chemical binding]; other site 383629000221 pantoate-binding site; other site 383629000222 HXXH motif; other site 383629000223 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 383629000224 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 383629000225 N- and C-terminal domain interface [polypeptide binding]; other site 383629000226 active site 383629000227 MgATP binding site [chemical binding]; other site 383629000228 catalytic site [active] 383629000229 metal binding site [ion binding]; metal-binding site 383629000230 glycerol binding site [chemical binding]; other site 383629000231 homotetramer interface [polypeptide binding]; other site 383629000232 homodimer interface [polypeptide binding]; other site 383629000233 FBP binding site [chemical binding]; other site 383629000234 protein IIAGlc interface [polypeptide binding]; other site 383629000235 hypothetical protein; Provisional; Region: PRK07538 383629000236 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 383629000237 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 383629000238 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 383629000239 active site 383629000240 metal binding site [ion binding]; metal-binding site 383629000241 nudix motif; other site 383629000242 Cytochrome c; Region: Cytochrom_C; cl11414 383629000243 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 383629000244 putative active site pocket [active] 383629000245 cleavage site 383629000246 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 383629000247 cleavage site 383629000248 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 383629000249 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 383629000250 putative NAD(P) binding site [chemical binding]; other site 383629000251 active site 383629000252 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 383629000253 hypothetical protein; Provisional; Region: PRK09256 383629000254 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 383629000255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 383629000256 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 383629000257 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 383629000258 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 383629000259 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 383629000260 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 383629000261 active site 383629000262 YGGT family; Region: YGGT; pfam02325 383629000263 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 383629000264 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 383629000265 ATP binding site [chemical binding]; other site 383629000266 putative Mg++ binding site [ion binding]; other site 383629000267 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 383629000268 nucleotide binding region [chemical binding]; other site 383629000269 ATP-binding site [chemical binding]; other site 383629000270 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 383629000271 HRDC domain; Region: HRDC; pfam00570 383629000272 hypothetical protein; Validated; Region: PRK02101 383629000273 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 383629000274 dimer interface [polypeptide binding]; other site 383629000275 phosphorylation site [posttranslational modification] 383629000276 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 383629000277 ATP binding site [chemical binding]; other site 383629000278 Mg2+ binding site [ion binding]; other site 383629000279 G-X-G motif; other site 383629000280 Response regulator receiver domain; Region: Response_reg; pfam00072 383629000281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629000282 active site 383629000283 phosphorylation site [posttranslational modification] 383629000284 intermolecular recognition site; other site 383629000285 dimerization interface [polypeptide binding]; other site 383629000286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629000287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629000288 active site 383629000289 phosphorylation site [posttranslational modification] 383629000290 intermolecular recognition site; other site 383629000291 dimerization interface [polypeptide binding]; other site 383629000292 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 383629000293 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 383629000294 MG2 domain; Region: A2M_N; pfam01835 383629000295 Alpha-2-macroglobulin family; Region: A2M; pfam00207 383629000296 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 383629000297 surface patch; other site 383629000298 thioester region; other site 383629000299 specificity defining residues; other site 383629000300 Transglycosylase; Region: Transgly; pfam00912 383629000301 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 383629000302 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 383629000303 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 383629000304 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 383629000305 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 383629000306 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 383629000307 Protein of unknown function DUF58; Region: DUF58; pfam01882 383629000308 MoxR-like ATPases [General function prediction only]; Region: COG0714 383629000309 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 383629000310 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 383629000311 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 383629000312 DNA polymerase I; Provisional; Region: PRK05755 383629000313 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 383629000314 active site 383629000315 metal binding site 1 [ion binding]; metal-binding site 383629000316 putative 5' ssDNA interaction site; other site 383629000317 metal binding site 3; metal-binding site 383629000318 metal binding site 2 [ion binding]; metal-binding site 383629000319 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 383629000320 putative DNA binding site [nucleotide binding]; other site 383629000321 putative metal binding site [ion binding]; other site 383629000322 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 383629000323 active site 383629000324 catalytic site [active] 383629000325 substrate binding site [chemical binding]; other site 383629000326 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 383629000327 active site 383629000328 DNA binding site [nucleotide binding] 383629000329 catalytic site [active] 383629000330 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 383629000331 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 383629000332 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 383629000333 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 383629000334 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629000335 metal binding site [ion binding]; metal-binding site 383629000336 active site 383629000337 I-site; other site 383629000338 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 383629000339 Zinc-finger domain; Region: zf-CHCC; pfam10276 383629000340 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 383629000341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629000342 Walker A/P-loop; other site 383629000343 ATP binding site [chemical binding]; other site 383629000344 Q-loop/lid; other site 383629000345 ABC transporter signature motif; other site 383629000346 Walker B; other site 383629000347 D-loop; other site 383629000348 H-loop/switch region; other site 383629000349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629000350 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 383629000351 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629000352 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 383629000353 Walker A/P-loop; other site 383629000354 ATP binding site [chemical binding]; other site 383629000355 Q-loop/lid; other site 383629000356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629000357 ABC transporter signature motif; other site 383629000358 Walker B; other site 383629000359 D-loop; other site 383629000360 H-loop/switch region; other site 383629000361 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629000362 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 383629000363 ligand binding site [chemical binding]; other site 383629000364 flexible hinge region; other site 383629000365 CAAX protease self-immunity; Region: Abi; pfam02517 383629000366 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 383629000367 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 383629000368 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 383629000369 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 383629000370 Predicted ATPase [General function prediction only]; Region: COG1485 383629000371 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 383629000372 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629000373 putative substrate translocation pore; other site 383629000374 ornithine cyclodeaminase; Validated; Region: PRK06141 383629000375 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 383629000376 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 383629000377 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 383629000378 EamA-like transporter family; Region: EamA; pfam00892 383629000379 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629000380 EamA-like transporter family; Region: EamA; cl17759 383629000381 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 383629000382 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 383629000383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629000384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629000385 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 383629000386 S-formylglutathione hydrolase; Region: PLN02442 383629000387 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 383629000388 Predicted permeases [General function prediction only]; Region: COG0679 383629000389 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629000390 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629000391 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 383629000392 Cytochrome C' Region: Cytochrom_C_2; cl01610 383629000393 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 383629000394 dimerization interface [polypeptide binding]; other site 383629000395 putative DNA binding site [nucleotide binding]; other site 383629000396 putative Zn2+ binding site [ion binding]; other site 383629000397 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 383629000398 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 383629000399 NlpC/P60 family; Region: NLPC_P60; cl17555 383629000400 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 383629000401 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 383629000402 interface (dimer of trimers) [polypeptide binding]; other site 383629000403 Substrate-binding/catalytic site; other site 383629000404 Zn-binding sites [ion binding]; other site 383629000405 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 383629000406 active site clefts [active] 383629000407 zinc binding site [ion binding]; other site 383629000408 dimer interface [polypeptide binding]; other site 383629000409 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 383629000410 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 383629000411 putative substrate translocation pore; other site 383629000412 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 383629000413 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 383629000414 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 383629000415 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 383629000416 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 383629000417 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629000418 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 383629000419 TM-ABC transporter signature motif; other site 383629000420 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629000421 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 383629000422 TM-ABC transporter signature motif; other site 383629000423 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629000424 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629000425 Walker A/P-loop; other site 383629000426 ATP binding site [chemical binding]; other site 383629000427 Q-loop/lid; other site 383629000428 ABC transporter signature motif; other site 383629000429 Walker B; other site 383629000430 D-loop; other site 383629000431 H-loop/switch region; other site 383629000432 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629000433 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629000434 Walker A/P-loop; other site 383629000435 ATP binding site [chemical binding]; other site 383629000436 Q-loop/lid; other site 383629000437 ABC transporter signature motif; other site 383629000438 Walker B; other site 383629000439 D-loop; other site 383629000440 H-loop/switch region; other site 383629000441 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629000442 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 383629000443 putative ligand binding site [chemical binding]; other site 383629000444 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 383629000445 tyrosine decarboxylase; Region: PLN02880 383629000446 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 383629000447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629000448 catalytic residue [active] 383629000449 MarR family; Region: MarR_2; cl17246 383629000450 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629000451 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 383629000452 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 383629000453 MOFRL family; Region: MOFRL; pfam05161 383629000454 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 383629000455 Sulfatase; Region: Sulfatase; cl17466 383629000456 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 383629000457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629000458 DNA-binding site [nucleotide binding]; DNA binding site 383629000459 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 383629000460 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 383629000461 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 383629000462 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 383629000463 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 383629000464 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 383629000465 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 383629000466 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 383629000467 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 383629000468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629000469 Walker A/P-loop; other site 383629000470 ATP binding site [chemical binding]; other site 383629000471 Q-loop/lid; other site 383629000472 ABC transporter signature motif; other site 383629000473 Walker B; other site 383629000474 D-loop; other site 383629000475 H-loop/switch region; other site 383629000476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629000477 dimer interface [polypeptide binding]; other site 383629000478 conserved gate region; other site 383629000479 putative PBP binding loops; other site 383629000480 ABC-ATPase subunit interface; other site 383629000481 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 383629000482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629000483 dimer interface [polypeptide binding]; other site 383629000484 conserved gate region; other site 383629000485 putative PBP binding loops; other site 383629000486 ABC-ATPase subunit interface; other site 383629000487 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 383629000488 active site 383629000489 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 383629000490 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 383629000491 NodB motif; other site 383629000492 putative active site [active] 383629000493 putative catalytic site [active] 383629000494 putative Zn binding site [ion binding]; other site 383629000495 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 383629000496 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 383629000497 DXD motif; other site 383629000498 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 383629000499 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 383629000500 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 383629000501 hinge; other site 383629000502 active site 383629000503 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 383629000504 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 383629000505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629000506 Coenzyme A binding pocket [chemical binding]; other site 383629000507 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 383629000508 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 383629000509 NAD binding site [chemical binding]; other site 383629000510 dimerization interface [polypeptide binding]; other site 383629000511 product binding site; other site 383629000512 substrate binding site [chemical binding]; other site 383629000513 zinc binding site [ion binding]; other site 383629000514 catalytic residues [active] 383629000515 hypothetical protein; Provisional; Region: PRK02853 383629000516 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 383629000517 Low molecular weight phosphatase family; Region: LMWPc; cl00105 383629000518 active site 383629000519 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 383629000520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 383629000521 Coenzyme A binding pocket [chemical binding]; other site 383629000522 Predicted amidohydrolase [General function prediction only]; Region: COG0388 383629000523 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 383629000524 putative active site [active] 383629000525 catalytic triad [active] 383629000526 putative dimer interface [polypeptide binding]; other site 383629000527 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 383629000528 rRNA binding site [nucleotide binding]; other site 383629000529 predicted 30S ribosome binding site; other site 383629000530 Maf-like protein; Region: Maf; pfam02545 383629000531 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 383629000532 active site 383629000533 dimer interface [polypeptide binding]; other site 383629000534 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 383629000535 Domain of unknown function (DUF329); Region: DUF329; pfam03884 383629000536 Winged helix-turn helix; Region: HTH_29; pfam13551 383629000537 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629000538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629000539 HAMP domain; Region: HAMP; pfam00672 383629000540 dimerization interface [polypeptide binding]; other site 383629000541 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 383629000542 dimer interface [polypeptide binding]; other site 383629000543 phosphorylation site [posttranslational modification] 383629000544 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 383629000545 ATP binding site [chemical binding]; other site 383629000546 Mg2+ binding site [ion binding]; other site 383629000547 G-X-G motif; other site 383629000548 DNA-binding response regulator CreB; Provisional; Region: PRK11083 383629000549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629000550 active site 383629000551 phosphorylation site [posttranslational modification] 383629000552 intermolecular recognition site; other site 383629000553 dimerization interface [polypeptide binding]; other site 383629000554 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 383629000555 DNA binding site [nucleotide binding] 383629000556 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 383629000557 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 383629000558 Sulfatase; Region: Sulfatase; pfam00884 383629000559 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 383629000560 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 383629000561 active site 383629000562 iron coordination sites [ion binding]; other site 383629000563 substrate binding pocket [chemical binding]; other site 383629000564 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629000565 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 383629000566 dimerization interface [polypeptide binding]; other site 383629000567 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 383629000568 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 383629000569 Autotransporter beta-domain; Region: Autotransporter; pfam03797 383629000570 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 383629000571 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 383629000572 putative NAD(P) binding site [chemical binding]; other site 383629000573 dimer interface [polypeptide binding]; other site 383629000574 Cupin domain; Region: Cupin_2; pfam07883 383629000575 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 383629000576 phosphate binding site [ion binding]; other site 383629000577 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 383629000578 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 383629000579 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 383629000580 putative substrate translocation pore; other site 383629000581 short chain dehydrogenase; Provisional; Region: PRK07041 383629000582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629000583 NAD(P) binding site [chemical binding]; other site 383629000584 active site 383629000585 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_9; cd07245 383629000586 dimer interface [polypeptide binding]; other site 383629000587 putative metal binding site [ion binding]; other site 383629000588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629000589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629000590 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629000591 putative effector binding pocket; other site 383629000592 dimerization interface [polypeptide binding]; other site 383629000593 Winged helix-turn helix; Region: HTH_29; pfam13551 383629000594 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629000595 Integrase core domain; Region: rve; pfam00665 383629000596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629000597 Integrase core domain; Region: rve_3; pfam13683 383629000598 HTH-like domain; Region: HTH_21; pfam13276 383629000599 Transposase; Region: HTH_Tnp_1; cl17663 383629000600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 383629000601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629000602 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 383629000603 NAD(P) binding site [chemical binding]; other site 383629000604 active site 383629000605 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 383629000606 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 383629000607 active site 383629000608 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 383629000609 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 383629000610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629000611 catalytic residue [active] 383629000612 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 383629000613 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 383629000614 NADP-binding site; other site 383629000615 homotetramer interface [polypeptide binding]; other site 383629000616 substrate binding site [chemical binding]; other site 383629000617 homodimer interface [polypeptide binding]; other site 383629000618 active site 383629000619 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 383629000620 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629000621 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 383629000622 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 383629000623 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629000624 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 383629000625 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 383629000626 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 383629000627 DNA binding residues [nucleotide binding] 383629000628 putative dimer interface [polypeptide binding]; other site 383629000629 putative metal binding residues [ion binding]; other site 383629000630 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 383629000631 putative substrate translocation pore; other site 383629000632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629000633 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 383629000634 active site 383629000635 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 383629000636 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 383629000637 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629000638 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 383629000639 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629000640 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 383629000641 Walker A/P-loop; other site 383629000642 ATP binding site [chemical binding]; other site 383629000643 Q-loop/lid; other site 383629000644 ABC transporter signature motif; other site 383629000645 Walker B; other site 383629000646 D-loop; other site 383629000647 H-loop/switch region; other site 383629000648 Outer membrane efflux protein; Region: OEP; pfam02321 383629000649 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 383629000650 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 383629000651 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 383629000652 PrkA family serine protein kinase; Provisional; Region: PRK15455 383629000653 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 383629000654 Walker A motif; other site 383629000655 ATP binding site [chemical binding]; other site 383629000656 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 383629000657 hypothetical protein; Provisional; Region: PRK05325 383629000658 SpoVR family protein; Provisional; Region: PRK11767 383629000659 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 383629000660 Transcriptional regulators [Transcription]; Region: GntR; COG1802 383629000661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629000662 DNA-binding site [nucleotide binding]; DNA binding site 383629000663 FCD domain; Region: FCD; pfam07729 383629000664 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 383629000665 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 383629000666 substrate binding site [chemical binding]; other site 383629000667 catalytic Zn binding site [ion binding]; other site 383629000668 NAD binding site [chemical binding]; other site 383629000669 structural Zn binding site [ion binding]; other site 383629000670 dimer interface [polypeptide binding]; other site 383629000671 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 383629000672 metal-binding site [ion binding] 383629000673 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 383629000674 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 383629000675 metal-binding site [ion binding] 383629000676 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 383629000677 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 383629000678 motif II; other site 383629000679 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 383629000680 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 383629000681 DNA binding residues [nucleotide binding] 383629000682 dimer interface [polypeptide binding]; other site 383629000683 copper binding site [ion binding]; other site 383629000684 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 383629000685 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 383629000686 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 383629000687 heterodimer interface [polypeptide binding]; other site 383629000688 active site 383629000689 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 383629000690 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 383629000691 active site 383629000692 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 383629000693 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 383629000694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629000695 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 383629000696 dimerization interface [polypeptide binding]; other site 383629000697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629000698 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 383629000699 TM-ABC transporter signature motif; other site 383629000700 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629000701 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 383629000702 TM-ABC transporter signature motif; other site 383629000703 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629000704 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629000705 Walker A/P-loop; other site 383629000706 ATP binding site [chemical binding]; other site 383629000707 Q-loop/lid; other site 383629000708 ABC transporter signature motif; other site 383629000709 Walker B; other site 383629000710 D-loop; other site 383629000711 H-loop/switch region; other site 383629000712 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629000713 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629000714 Walker A/P-loop; other site 383629000715 ATP binding site [chemical binding]; other site 383629000716 Q-loop/lid; other site 383629000717 ABC transporter signature motif; other site 383629000718 Walker B; other site 383629000719 D-loop; other site 383629000720 H-loop/switch region; other site 383629000721 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 383629000722 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629000723 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629000724 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 383629000725 acyl-activating enzyme (AAE) consensus motif; other site 383629000726 acyl-activating enzyme (AAE) consensus motif; other site 383629000727 putative AMP binding site [chemical binding]; other site 383629000728 putative active site [active] 383629000729 putative CoA binding site [chemical binding]; other site 383629000730 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 383629000731 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629000732 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 383629000733 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 383629000734 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 383629000735 Predicted integral membrane protein [Function unknown]; Region: COG5616 383629000736 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 383629000737 binding surface 383629000738 TPR motif; other site 383629000739 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629000740 TPR motif; other site 383629000741 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 383629000742 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 383629000743 NAD(P) binding site [chemical binding]; other site 383629000744 Hint domain; Region: Hint_2; pfam13403 383629000745 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629000746 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629000747 DNA binding site [nucleotide binding] 383629000748 domain linker motif; other site 383629000749 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_2; cd06278 383629000750 putative dimerization interface [polypeptide binding]; other site 383629000751 putative ligand binding site [chemical binding]; other site 383629000752 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 383629000753 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629000754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629000755 dimer interface [polypeptide binding]; other site 383629000756 putative PBP binding loops; other site 383629000757 ABC-ATPase subunit interface; other site 383629000758 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629000759 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629000760 dimer interface [polypeptide binding]; other site 383629000761 conserved gate region; other site 383629000762 putative PBP binding loops; other site 383629000763 ABC-ATPase subunit interface; other site 383629000764 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 383629000765 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629000766 Walker A/P-loop; other site 383629000767 ATP binding site [chemical binding]; other site 383629000768 Q-loop/lid; other site 383629000769 ABC transporter signature motif; other site 383629000770 Walker B; other site 383629000771 D-loop; other site 383629000772 H-loop/switch region; other site 383629000773 TOBE domain; Region: TOBE_2; pfam08402 383629000774 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 383629000775 putative catalytic site [active] 383629000776 putative metal binding site [ion binding]; other site 383629000777 putative phosphate binding site [ion binding]; other site 383629000778 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 383629000779 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 383629000780 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 383629000781 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 383629000782 DNA binding site [nucleotide binding] 383629000783 active site 383629000784 phosphoglyceromutase; Provisional; Region: PRK05434 383629000785 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 383629000786 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 383629000787 Peptidase family M23; Region: Peptidase_M23; pfam01551 383629000788 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 383629000789 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 383629000790 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 383629000791 protein binding site [polypeptide binding]; other site 383629000792 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 383629000793 Catalytic dyad [active] 383629000794 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 383629000795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629000796 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 383629000797 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 383629000798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629000799 NADH(P)-binding; Region: NAD_binding_10; pfam13460 383629000800 NAD(P) binding site [chemical binding]; other site 383629000801 active site 383629000802 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 383629000803 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 383629000804 Walker A/P-loop; other site 383629000805 ATP binding site [chemical binding]; other site 383629000806 Q-loop/lid; other site 383629000807 ABC transporter signature motif; other site 383629000808 Walker B; other site 383629000809 D-loop; other site 383629000810 H-loop/switch region; other site 383629000811 ABC-2 type transporter; Region: ABC2_membrane; cl17235 383629000812 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 383629000813 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 383629000814 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 383629000815 tandem repeat interface [polypeptide binding]; other site 383629000816 oligomer interface [polypeptide binding]; other site 383629000817 active site residues [active] 383629000818 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 383629000819 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 383629000820 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 383629000821 short chain dehydrogenase; Provisional; Region: PRK09134 383629000822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629000823 NAD(P) binding site [chemical binding]; other site 383629000824 active site 383629000825 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 383629000826 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 383629000827 GIY-YIG motif/motif A; other site 383629000828 active site 383629000829 catalytic site [active] 383629000830 putative DNA binding site [nucleotide binding]; other site 383629000831 metal binding site [ion binding]; metal-binding site 383629000832 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 383629000833 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 383629000834 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 383629000835 MoaE interaction surface [polypeptide binding]; other site 383629000836 MoeB interaction surface [polypeptide binding]; other site 383629000837 thiocarboxylated glycine; other site 383629000838 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 383629000839 MoaE homodimer interface [polypeptide binding]; other site 383629000840 MoaD interaction [polypeptide binding]; other site 383629000841 active site residues [active] 383629000842 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629000843 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629000844 ligand binding site [chemical binding]; other site 383629000845 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 383629000846 UbiA prenyltransferase family; Region: UbiA; pfam01040 383629000847 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 383629000848 RNA methyltransferase, RsmE family; Region: TIGR00046 383629000849 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 383629000850 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 383629000851 glutamate--cysteine ligase; Region: PLN02611 383629000852 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 383629000853 dihydroorotase; Validated; Region: PRK09059 383629000854 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 383629000855 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 383629000856 active site 383629000857 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 383629000858 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 383629000859 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 383629000860 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 383629000861 Fe-S cluster binding site [ion binding]; other site 383629000862 active site 383629000863 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 383629000864 MPT binding site; other site 383629000865 trimer interface [polypeptide binding]; other site 383629000866 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 383629000867 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629000868 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 383629000869 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_15; cd04673 383629000870 nudix motif; other site 383629000871 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 383629000872 hypothetical protein; Validated; Region: PRK00228 383629000873 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 383629000874 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 383629000875 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629000876 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629000877 active site 383629000878 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 383629000879 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 383629000880 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 383629000881 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 383629000882 AzlC protein; Region: AzlC; pfam03591 383629000883 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 383629000884 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 383629000885 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 383629000886 GTP binding site; other site 383629000887 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 383629000888 Walker A motif; other site 383629000889 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 383629000890 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 383629000891 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 383629000892 dimer interface [polypeptide binding]; other site 383629000893 putative functional site; other site 383629000894 putative MPT binding site; other site 383629000895 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 383629000896 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 383629000897 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 383629000898 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 383629000899 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629000900 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 383629000901 active site 383629000902 metal binding site [ion binding]; metal-binding site 383629000903 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 383629000904 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 383629000905 DNA binding residues [nucleotide binding] 383629000906 dimer interface [polypeptide binding]; other site 383629000907 [2Fe-2S] cluster binding site [ion binding]; other site 383629000908 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 383629000909 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629000910 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 383629000911 TPR repeat; Region: TPR_11; pfam13414 383629000912 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629000913 binding surface 383629000914 TPR motif; other site 383629000915 TPR repeat; Region: TPR_11; pfam13414 383629000916 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629000917 binding surface 383629000918 TPR motif; other site 383629000919 TPR repeat; Region: TPR_11; pfam13414 383629000920 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 383629000921 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 383629000922 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 383629000923 substrate binding pocket [chemical binding]; other site 383629000924 chain length determination region; other site 383629000925 substrate-Mg2+ binding site; other site 383629000926 catalytic residues [active] 383629000927 aspartate-rich region 1; other site 383629000928 active site lid residues [active] 383629000929 aspartate-rich region 2; other site 383629000930 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 383629000931 Methyltransferase domain; Region: Methyltransf_26; pfam13659 383629000932 Protein of unknown function (DUF465); Region: DUF465; cl01070 383629000933 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 383629000934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629000935 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 383629000936 dimerization interface [polypeptide binding]; other site 383629000937 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 383629000938 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 383629000939 NAD(P) binding site [chemical binding]; other site 383629000940 homotetramer interface [polypeptide binding]; other site 383629000941 homodimer interface [polypeptide binding]; other site 383629000942 active site 383629000943 putative acyltransferase; Provisional; Region: PRK05790 383629000944 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 383629000945 dimer interface [polypeptide binding]; other site 383629000946 active site 383629000947 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 383629000948 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 383629000949 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 383629000950 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 383629000951 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 383629000952 catalytic residues [active] 383629000953 argininosuccinate lyase; Provisional; Region: PRK00855 383629000954 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 383629000955 active sites [active] 383629000956 tetramer interface [polypeptide binding]; other site 383629000957 diaminopimelate decarboxylase; Region: lysA; TIGR01048 383629000958 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 383629000959 active site 383629000960 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629000961 substrate binding site [chemical binding]; other site 383629000962 catalytic residues [active] 383629000963 dimer interface [polypeptide binding]; other site 383629000964 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 383629000965 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 383629000966 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 383629000967 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 383629000968 Walker A/P-loop; other site 383629000969 ATP binding site [chemical binding]; other site 383629000970 Q-loop/lid; other site 383629000971 ABC transporter signature motif; other site 383629000972 Walker B; other site 383629000973 D-loop; other site 383629000974 H-loop/switch region; other site 383629000975 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 383629000976 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 383629000977 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 383629000978 putative acyl-acceptor binding pocket; other site 383629000979 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 383629000980 EthD domain; Region: EthD; cl17553 383629000981 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 383629000982 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 383629000983 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629000984 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 383629000985 MAPEG family; Region: MAPEG; pfam01124 383629000986 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 383629000987 E3 interaction surface; other site 383629000988 lipoyl attachment site [posttranslational modification]; other site 383629000989 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 383629000990 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 383629000991 E3 interaction surface; other site 383629000992 lipoyl attachment site [posttranslational modification]; other site 383629000993 e3 binding domain; Region: E3_binding; pfam02817 383629000994 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 383629000995 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 383629000996 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 383629000997 TPP-binding site [chemical binding]; other site 383629000998 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 383629000999 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 383629001000 CoA binding domain; Region: CoA_binding; pfam02629 383629001001 CoA-ligase; Region: Ligase_CoA; pfam00549 383629001002 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 383629001003 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 383629001004 CoA-ligase; Region: Ligase_CoA; pfam00549 383629001005 AAA domain; Region: AAA_28; pfam13521 383629001006 Predicted ATPase [General function prediction only]; Region: COG3911 383629001007 malate dehydrogenase; Reviewed; Region: PRK06223 383629001008 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 383629001009 NAD(P) binding site [chemical binding]; other site 383629001010 dimer interface [polypeptide binding]; other site 383629001011 tetramer (dimer of dimers) interface [polypeptide binding]; other site 383629001012 substrate binding site [chemical binding]; other site 383629001013 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 383629001014 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 383629001015 NnrU protein; Region: NnrU; pfam07298 383629001016 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 383629001017 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 383629001018 putative active site [active] 383629001019 putative catalytic site [active] 383629001020 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 383629001021 active site 2 [active] 383629001022 active site 1 [active] 383629001023 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 383629001024 catalytic core [active] 383629001025 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 383629001026 metal ion-dependent adhesion site (MIDAS); other site 383629001027 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 383629001028 Iron-sulfur protein interface; other site 383629001029 proximal quinone binding site [chemical binding]; other site 383629001030 SdhD (CybS) interface [polypeptide binding]; other site 383629001031 proximal heme binding site [chemical binding]; other site 383629001032 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 383629001033 putative SdhC subunit interface [polypeptide binding]; other site 383629001034 putative proximal heme binding site [chemical binding]; other site 383629001035 putative Iron-sulfur protein interface [polypeptide binding]; other site 383629001036 putative proximal quinone binding site; other site 383629001037 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 383629001038 L-aspartate oxidase; Provisional; Region: PRK06175 383629001039 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 383629001040 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 383629001041 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 383629001042 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 383629001043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 383629001044 dimer interface [polypeptide binding]; other site 383629001045 active site 383629001046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629001047 catalytic residues [active] 383629001048 substrate binding site [chemical binding]; other site 383629001049 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 383629001050 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 383629001051 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 383629001052 H-NS histone family; Region: Histone_HNS; pfam00816 383629001053 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 383629001054 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 383629001055 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 383629001056 B12 binding site [chemical binding]; other site 383629001057 cobalt ligand [ion binding]; other site 383629001058 Acyltransferase family; Region: Acyl_transf_3; pfam01757 383629001059 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 383629001060 putative acyl-acceptor binding pocket; other site 383629001061 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 383629001062 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 383629001063 putative NAD(P) binding site [chemical binding]; other site 383629001064 Autoinducer binding domain; Region: Autoind_bind; pfam03472 383629001065 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 383629001066 DNA binding residues [nucleotide binding] 383629001067 dimerization interface [polypeptide binding]; other site 383629001068 Autoinducer synthetase; Region: Autoind_synth; cl17404 383629001069 AAA domain; Region: AAA_30; pfam13604 383629001070 Family description; Region: UvrD_C_2; pfam13538 383629001071 classical (c) SDRs; Region: SDR_c; cd05233 383629001072 NAD(P) binding site [chemical binding]; other site 383629001073 active site 383629001074 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 383629001075 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 383629001076 hypothetical protein; Provisional; Region: PRK10621 383629001077 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 383629001078 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629001079 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 383629001080 TM-ABC transporter signature motif; other site 383629001081 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629001082 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 383629001083 TM-ABC transporter signature motif; other site 383629001084 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 383629001085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629001086 Walker A/P-loop; other site 383629001087 ATP binding site [chemical binding]; other site 383629001088 Q-loop/lid; other site 383629001089 ABC transporter signature motif; other site 383629001090 Walker B; other site 383629001091 D-loop; other site 383629001092 H-loop/switch region; other site 383629001093 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 383629001094 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 383629001095 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 383629001096 ligand binding site [chemical binding]; other site 383629001097 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 383629001098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629001099 Coenzyme A binding pocket [chemical binding]; other site 383629001100 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 383629001101 Glycoprotease family; Region: Peptidase_M22; pfam00814 383629001102 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 383629001103 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 383629001104 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 383629001105 Ligand Binding Site [chemical binding]; other site 383629001106 aminotransferase; Provisional; Region: PRK13356 383629001107 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 383629001108 homodimer interface [polypeptide binding]; other site 383629001109 substrate-cofactor binding pocket; other site 383629001110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001111 catalytic residue [active] 383629001112 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 383629001113 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 383629001114 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 383629001115 FAD binding pocket [chemical binding]; other site 383629001116 FAD binding motif [chemical binding]; other site 383629001117 phosphate binding motif [ion binding]; other site 383629001118 beta-alpha-beta structure motif; other site 383629001119 NAD(p) ribose binding residues [chemical binding]; other site 383629001120 NAD binding pocket [chemical binding]; other site 383629001121 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 383629001122 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 383629001123 catalytic loop [active] 383629001124 iron binding site [ion binding]; other site 383629001125 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 383629001126 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 383629001127 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 383629001128 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 383629001129 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 383629001130 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 383629001131 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 383629001132 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 383629001133 dimer interface [polypeptide binding]; other site 383629001134 active site 383629001135 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 383629001136 Sulfatase; Region: Sulfatase; cl17466 383629001137 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 383629001138 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 383629001139 substrate binding site [chemical binding]; other site 383629001140 oxyanion hole (OAH) forming residues; other site 383629001141 trimer interface [polypeptide binding]; other site 383629001142 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 383629001143 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 383629001144 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 383629001145 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 383629001146 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 383629001147 dimer interface [polypeptide binding]; other site 383629001148 active site 383629001149 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 383629001150 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 383629001151 FAD binding site [chemical binding]; other site 383629001152 substrate binding site [chemical binding]; other site 383629001153 catalytic base [active] 383629001154 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 383629001155 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 383629001156 active site 383629001157 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 383629001158 CoenzymeA binding site [chemical binding]; other site 383629001159 subunit interaction site [polypeptide binding]; other site 383629001160 PHB binding site; other site 383629001161 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 383629001162 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629001163 acyl-activating enzyme (AAE) consensus motif; other site 383629001164 AMP binding site [chemical binding]; other site 383629001165 active site 383629001166 CoA binding site [chemical binding]; other site 383629001167 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 383629001168 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 383629001169 substrate binding site [chemical binding]; other site 383629001170 hexamer interface [polypeptide binding]; other site 383629001171 metal binding site [ion binding]; metal-binding site 383629001172 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 383629001173 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 383629001174 Walker A/P-loop; other site 383629001175 ATP binding site [chemical binding]; other site 383629001176 Q-loop/lid; other site 383629001177 ABC transporter signature motif; other site 383629001178 Walker B; other site 383629001179 D-loop; other site 383629001180 H-loop/switch region; other site 383629001181 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 383629001182 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 383629001183 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 383629001184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629001185 dimer interface [polypeptide binding]; other site 383629001186 conserved gate region; other site 383629001187 putative PBP binding loops; other site 383629001188 ABC-ATPase subunit interface; other site 383629001189 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 383629001190 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629001191 dimer interface [polypeptide binding]; other site 383629001192 conserved gate region; other site 383629001193 ABC-ATPase subunit interface; other site 383629001194 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 383629001195 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 383629001196 trimer interface [polypeptide binding]; other site 383629001197 active site 383629001198 substrate binding site [chemical binding]; other site 383629001199 CoA binding site [chemical binding]; other site 383629001200 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 383629001201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629001202 DNA-binding site [nucleotide binding]; DNA binding site 383629001203 UTRA domain; Region: UTRA; pfam07702 383629001204 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 383629001205 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 383629001206 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 383629001207 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 383629001208 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 383629001209 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629001210 Walker A/P-loop; other site 383629001211 ATP binding site [chemical binding]; other site 383629001212 Q-loop/lid; other site 383629001213 ABC transporter signature motif; other site 383629001214 Walker B; other site 383629001215 D-loop; other site 383629001216 H-loop/switch region; other site 383629001217 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629001218 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 383629001219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629001220 Walker A/P-loop; other site 383629001221 ATP binding site [chemical binding]; other site 383629001222 Q-loop/lid; other site 383629001223 ABC transporter signature motif; other site 383629001224 Walker B; other site 383629001225 D-loop; other site 383629001226 H-loop/switch region; other site 383629001227 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 383629001228 active site 383629001229 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 383629001230 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 383629001231 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 383629001232 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 383629001233 active site 383629001234 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 383629001235 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 383629001236 NodB motif; other site 383629001237 putative active site [active] 383629001238 putative catalytic site [active] 383629001239 putative Zn binding site [ion binding]; other site 383629001240 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 383629001241 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 383629001242 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 383629001243 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 383629001244 catalytic core [active] 383629001245 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 383629001246 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 383629001247 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 383629001248 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 383629001249 putative ADP-binding pocket [chemical binding]; other site 383629001250 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 383629001251 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 383629001252 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 383629001253 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629001254 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 383629001255 CoA-transferase family III; Region: CoA_transf_3; pfam02515 383629001256 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 383629001257 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 383629001258 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629001259 dimer interface [polypeptide binding]; other site 383629001260 conserved gate region; other site 383629001261 putative PBP binding loops; other site 383629001262 ABC-ATPase subunit interface; other site 383629001263 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629001264 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629001265 dimer interface [polypeptide binding]; other site 383629001266 conserved gate region; other site 383629001267 putative PBP binding loops; other site 383629001268 ABC-ATPase subunit interface; other site 383629001269 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_4; cd08500 383629001270 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 383629001271 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 383629001272 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629001273 Walker A/P-loop; other site 383629001274 ATP binding site [chemical binding]; other site 383629001275 Q-loop/lid; other site 383629001276 ABC transporter signature motif; other site 383629001277 Walker B; other site 383629001278 D-loop; other site 383629001279 H-loop/switch region; other site 383629001280 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629001281 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629001282 Walker A/P-loop; other site 383629001283 ATP binding site [chemical binding]; other site 383629001284 Q-loop/lid; other site 383629001285 ABC transporter signature motif; other site 383629001286 Walker B; other site 383629001287 D-loop; other site 383629001288 H-loop/switch region; other site 383629001289 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629001290 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 383629001291 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629001292 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 383629001293 putative C-terminal domain interface [polypeptide binding]; other site 383629001294 putative GSH binding site (G-site) [chemical binding]; other site 383629001295 putative dimer interface [polypeptide binding]; other site 383629001296 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 383629001297 N-terminal domain interface [polypeptide binding]; other site 383629001298 dimer interface [polypeptide binding]; other site 383629001299 substrate binding pocket (H-site) [chemical binding]; other site 383629001300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629001301 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629001302 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 383629001303 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 383629001304 dimer interface [polypeptide binding]; other site 383629001305 PYR/PP interface [polypeptide binding]; other site 383629001306 TPP binding site [chemical binding]; other site 383629001307 substrate binding site [chemical binding]; other site 383629001308 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 383629001309 TPP-binding site [chemical binding]; other site 383629001310 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 383629001311 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629001312 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 383629001313 putative DNA binding site [nucleotide binding]; other site 383629001314 putative Zn2+ binding site [ion binding]; other site 383629001315 AsnC family; Region: AsnC_trans_reg; pfam01037 383629001316 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 383629001317 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 383629001318 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629001319 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 383629001320 Walker A/P-loop; other site 383629001321 ATP binding site [chemical binding]; other site 383629001322 Q-loop/lid; other site 383629001323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629001324 Walker B; other site 383629001325 D-loop; other site 383629001326 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629001327 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 383629001328 ligand binding site [chemical binding]; other site 383629001329 flexible hinge region; other site 383629001330 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 383629001331 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 383629001332 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 383629001333 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 383629001334 active site pocket [active] 383629001335 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 383629001336 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 383629001337 NAD binding site [chemical binding]; other site 383629001338 catalytic Zn binding site [ion binding]; other site 383629001339 substrate binding site [chemical binding]; other site 383629001340 structural Zn binding site [ion binding]; other site 383629001341 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 383629001342 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 383629001343 tetramer interface [polypeptide binding]; other site 383629001344 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 383629001345 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 383629001346 putative catalytic site [active] 383629001347 putative metal binding site [ion binding]; other site 383629001348 putative phosphate binding site [ion binding]; other site 383629001349 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 383629001350 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 383629001351 tetramer interface [polypeptide binding]; other site 383629001352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001353 catalytic residue [active] 383629001354 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 383629001355 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 383629001356 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 383629001357 motif II; other site 383629001358 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 383629001359 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 383629001360 Nitronate monooxygenase; Region: NMO; pfam03060 383629001361 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 383629001362 FMN binding site [chemical binding]; other site 383629001363 substrate binding site [chemical binding]; other site 383629001364 putative catalytic residue [active] 383629001365 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 383629001366 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 383629001367 NAD binding site [chemical binding]; other site 383629001368 homotetramer interface [polypeptide binding]; other site 383629001369 homodimer interface [polypeptide binding]; other site 383629001370 substrate binding site [chemical binding]; other site 383629001371 active site 383629001372 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 383629001373 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 383629001374 dimer interface [polypeptide binding]; other site 383629001375 active site 383629001376 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 383629001377 active site 1 [active] 383629001378 dimer interface [polypeptide binding]; other site 383629001379 active site 2 [active] 383629001380 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 383629001381 metal binding site 2 [ion binding]; metal-binding site 383629001382 putative DNA binding helix; other site 383629001383 metal binding site 1 [ion binding]; metal-binding site 383629001384 dimer interface [polypeptide binding]; other site 383629001385 structural Zn2+ binding site [ion binding]; other site 383629001386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629001387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629001388 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 383629001389 dimerization interface [polypeptide binding]; other site 383629001390 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 383629001391 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629001392 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 383629001393 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 383629001394 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 383629001395 FeS/SAM binding site; other site 383629001396 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629001397 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629001398 ligand binding site [chemical binding]; other site 383629001399 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 383629001400 PhoH-like protein; Region: PhoH; pfam02562 383629001401 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 383629001402 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 383629001403 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 383629001404 Transporter associated domain; Region: CorC_HlyC; smart01091 383629001405 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 383629001406 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 383629001407 putative active site [active] 383629001408 catalytic triad [active] 383629001409 putative dimer interface [polypeptide binding]; other site 383629001410 S-adenosylmethionine synthetase; Validated; Region: PRK05250 383629001411 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 383629001412 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 383629001413 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 383629001414 Predicted periplasmic protein [Function unknown]; Region: COG3904 383629001415 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 383629001416 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 383629001417 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 383629001418 hinge; other site 383629001419 active site 383629001420 cytidylate kinase; Provisional; Region: cmk; PRK00023 383629001421 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 383629001422 CMP-binding site; other site 383629001423 The sites determining sugar specificity; other site 383629001424 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 383629001425 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 383629001426 RNA binding site [nucleotide binding]; other site 383629001427 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 383629001428 RNA binding site [nucleotide binding]; other site 383629001429 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 383629001430 RNA binding site [nucleotide binding]; other site 383629001431 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 383629001432 RNA binding site [nucleotide binding]; other site 383629001433 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 383629001434 RNA binding site [nucleotide binding]; other site 383629001435 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 383629001436 RNA binding site [nucleotide binding]; other site 383629001437 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 383629001438 IHF dimer interface [polypeptide binding]; other site 383629001439 IHF - DNA interface [nucleotide binding]; other site 383629001440 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 383629001441 active site 383629001442 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 383629001443 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 383629001444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001445 catalytic residue [active] 383629001446 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 383629001447 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 383629001448 Beta-lactamase; Region: Beta-lactamase; pfam00144 383629001449 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 383629001450 putative active site [active] 383629001451 catalytic residue [active] 383629001452 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 383629001453 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 383629001454 5S rRNA interface [nucleotide binding]; other site 383629001455 CTC domain interface [polypeptide binding]; other site 383629001456 L16 interface [polypeptide binding]; other site 383629001457 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 383629001458 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 383629001459 active site 383629001460 substrate binding site [chemical binding]; other site 383629001461 FMN binding site [chemical binding]; other site 383629001462 putative catalytic residues [active] 383629001463 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 383629001464 substrate binding site [chemical binding]; other site 383629001465 active site 383629001466 catalytic residues [active] 383629001467 heterodimer interface [polypeptide binding]; other site 383629001468 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 383629001469 GTP-binding protein YchF; Reviewed; Region: PRK09601 383629001470 YchF GTPase; Region: YchF; cd01900 383629001471 G1 box; other site 383629001472 GTP/Mg2+ binding site [chemical binding]; other site 383629001473 Switch I region; other site 383629001474 G2 box; other site 383629001475 Switch II region; other site 383629001476 G3 box; other site 383629001477 G4 box; other site 383629001478 G5 box; other site 383629001479 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 383629001480 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 383629001481 active site 383629001482 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 383629001483 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 383629001484 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 383629001485 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 383629001486 [2Fe-2S] cluster binding site [ion binding]; other site 383629001487 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 383629001488 putative alpha subunit interface [polypeptide binding]; other site 383629001489 putative active site [active] 383629001490 putative substrate binding site [chemical binding]; other site 383629001491 Fe binding site [ion binding]; other site 383629001492 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 383629001493 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 383629001494 FAD binding pocket [chemical binding]; other site 383629001495 FAD binding motif [chemical binding]; other site 383629001496 phosphate binding motif [ion binding]; other site 383629001497 beta-alpha-beta structure motif; other site 383629001498 NAD binding pocket [chemical binding]; other site 383629001499 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 383629001500 catalytic loop [active] 383629001501 iron binding site [ion binding]; other site 383629001502 Winged helix-turn helix; Region: HTH_29; pfam13551 383629001503 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629001504 Integrase core domain; Region: rve; pfam00665 383629001505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629001506 Integrase core domain; Region: rve_3; pfam13683 383629001507 Protein of unknown function DUF262; Region: DUF262; pfam03235 383629001508 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 383629001509 short chain dehydrogenase; Provisional; Region: PRK07454 383629001510 classical (c) SDRs; Region: SDR_c; cd05233 383629001511 NAD(P) binding site [chemical binding]; other site 383629001512 active site 383629001513 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 383629001514 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 383629001515 inhibitor-cofactor binding pocket; inhibition site 383629001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001517 catalytic residue [active] 383629001518 WxcM-like, C-terminal; Region: FdtA; pfam05523 383629001519 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 383629001520 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 383629001521 active site 383629001522 Transcriptional regulators [Transcription]; Region: GntR; COG1802 383629001523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629001524 DNA-binding site [nucleotide binding]; DNA binding site 383629001525 FCD domain; Region: FCD; pfam07729 383629001526 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 383629001527 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 383629001528 inhibitor site; inhibition site 383629001529 active site 383629001530 dimer interface [polypeptide binding]; other site 383629001531 catalytic residue [active] 383629001532 Proline racemase; Region: Pro_racemase; pfam05544 383629001533 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 383629001534 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 383629001535 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629001536 NAD(P) binding site [chemical binding]; other site 383629001537 catalytic residues [active] 383629001538 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 383629001539 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629001540 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 383629001541 dimerization interface [polypeptide binding]; other site 383629001542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629001543 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629001544 dimer interface [polypeptide binding]; other site 383629001545 putative CheW interface [polypeptide binding]; other site 383629001546 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 383629001547 Penicillinase repressor; Region: Pencillinase_R; pfam03965 383629001548 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 383629001549 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629001550 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629001551 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629001552 dimer interface [polypeptide binding]; other site 383629001553 conserved gate region; other site 383629001554 ABC-ATPase subunit interface; other site 383629001555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629001556 dimer interface [polypeptide binding]; other site 383629001557 conserved gate region; other site 383629001558 putative PBP binding loops; other site 383629001559 ABC-ATPase subunit interface; other site 383629001560 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 383629001561 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 383629001562 Walker A/P-loop; other site 383629001563 ATP binding site [chemical binding]; other site 383629001564 Q-loop/lid; other site 383629001565 ABC transporter signature motif; other site 383629001566 Walker B; other site 383629001567 D-loop; other site 383629001568 H-loop/switch region; other site 383629001569 TOBE domain; Region: TOBE_2; pfam08402 383629001570 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 383629001571 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 383629001572 Walker A/P-loop; other site 383629001573 ATP binding site [chemical binding]; other site 383629001574 Q-loop/lid; other site 383629001575 ABC transporter signature motif; other site 383629001576 Walker B; other site 383629001577 D-loop; other site 383629001578 H-loop/switch region; other site 383629001579 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629001580 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629001581 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 383629001582 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 383629001583 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 383629001584 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 383629001585 Bacterial sugar transferase; Region: Bac_transf; pfam02397 383629001586 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 383629001587 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 383629001588 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 383629001589 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 383629001590 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 383629001591 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 383629001592 putative ADP-binding pocket [chemical binding]; other site 383629001593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 383629001594 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 383629001595 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 383629001596 active site 383629001597 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 383629001598 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 383629001599 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 383629001600 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 383629001601 active site 383629001602 substrate binding site [chemical binding]; other site 383629001603 cosubstrate binding site; other site 383629001604 catalytic site [active] 383629001605 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 383629001606 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629001607 acyl-activating enzyme (AAE) consensus motif; other site 383629001608 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 383629001609 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 383629001610 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 383629001611 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 383629001612 AMP binding site [chemical binding]; other site 383629001613 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 383629001614 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 383629001615 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 383629001616 Probable Catalytic site; other site 383629001617 metal-binding site 383629001618 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 383629001619 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 383629001620 active site 383629001621 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 383629001622 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 383629001623 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 383629001624 putative NADP binding site [chemical binding]; other site 383629001625 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 383629001626 active site 383629001627 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 383629001628 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 383629001629 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 383629001630 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 383629001631 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 383629001632 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 383629001633 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 383629001634 active site 383629001635 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629001636 Glucokinase; Region: Glucokinase; cl17310 383629001637 glucokinase, proteobacterial type; Region: glk; TIGR00749 383629001638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 383629001639 Family of unknown function (DUF490); Region: DUF490; pfam04357 383629001640 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 383629001641 Surface antigen; Region: Bac_surface_Ag; pfam01103 383629001642 Protein of unknown function (DUF989); Region: DUF989; pfam06181 383629001643 Predicted membrane protein [Function unknown]; Region: COG3748 383629001644 Cytochrome c; Region: Cytochrom_C; pfam00034 383629001645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629001646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629001647 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629001648 dimerization interface [polypeptide binding]; other site 383629001649 putative effector binding pocket; other site 383629001650 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 383629001651 active site 383629001652 homotetramer interface [polypeptide binding]; other site 383629001653 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 383629001654 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 383629001655 active site 383629001656 catalytic site [active] 383629001657 tetramer interface [polypeptide binding]; other site 383629001658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 383629001659 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 383629001660 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 383629001661 xanthine permease; Region: pbuX; TIGR03173 383629001662 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 383629001663 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 383629001664 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 383629001665 hypothetical protein; Provisional; Region: PRK11171 383629001666 Cupin domain; Region: Cupin_2; cl17218 383629001667 Cupin domain; Region: Cupin_2; pfam07883 383629001668 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 383629001669 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 383629001670 Bacterial transcriptional regulator; Region: IclR; pfam01614 383629001671 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 383629001672 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 383629001673 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629001674 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 383629001675 lipoyl attachment site [posttranslational modification]; other site 383629001676 glycine dehydrogenase; Provisional; Region: PRK05367 383629001677 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 383629001678 tetramer interface [polypeptide binding]; other site 383629001679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001680 catalytic residue [active] 383629001681 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 383629001682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001683 tetramer interface [polypeptide binding]; other site 383629001684 catalytic residue [active] 383629001685 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629001686 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629001687 active site 383629001688 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 383629001689 Ligand Binding Site [chemical binding]; other site 383629001690 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 383629001691 active site 383629001692 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 383629001693 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 383629001694 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 383629001695 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 383629001696 PAS domain; Region: PAS_9; pfam13426 383629001697 putative active site [active] 383629001698 heme pocket [chemical binding]; other site 383629001699 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 383629001700 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 383629001701 dimerization interface 3.5A [polypeptide binding]; other site 383629001702 active site 383629001703 YcjX-like family, DUF463; Region: DUF463; pfam04317 383629001704 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 383629001705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629001706 Coenzyme A binding pocket [chemical binding]; other site 383629001707 hypothetical protein; Provisional; Region: PRK05415 383629001708 Domain of unknown function (DUF697); Region: DUF697; pfam05128 383629001709 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 383629001710 heme-binding site [chemical binding]; other site 383629001711 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 383629001712 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 383629001713 putative NAD(P) binding site [chemical binding]; other site 383629001714 active site 383629001715 DoxX-like family; Region: DoxX_3; pfam13781 383629001716 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 383629001717 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 383629001718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629001719 active site 383629001720 HIGH motif; other site 383629001721 nucleotide binding site [chemical binding]; other site 383629001722 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 383629001723 active site 383629001724 KMSKS motif; other site 383629001725 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 383629001726 tRNA binding surface [nucleotide binding]; other site 383629001727 anticodon binding site; other site 383629001728 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 383629001729 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 383629001730 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 383629001731 DNA binding site [nucleotide binding] 383629001732 active site 383629001733 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 383629001734 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 383629001735 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 383629001736 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 383629001737 active site 383629001738 DNA binding site [nucleotide binding] 383629001739 Int/Topo IB signature motif; other site 383629001740 Protein of unknown function, DUF484; Region: DUF484; cl17449 383629001741 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 383629001742 active site 383629001743 intersubunit interactions; other site 383629001744 catalytic residue [active] 383629001745 primosome assembly protein PriA; Validated; Region: PRK05580 383629001746 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 383629001747 ATP binding site [chemical binding]; other site 383629001748 putative Mg++ binding site [ion binding]; other site 383629001749 Sulphur transport; Region: Sulf_transp; pfam04143 383629001750 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 383629001751 putative substrate translocation pore; other site 383629001752 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 383629001753 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 383629001754 S-adenosylmethionine binding site [chemical binding]; other site 383629001755 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 383629001756 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 383629001757 active site 383629001758 putative DNA-binding cleft [nucleotide binding]; other site 383629001759 dimer interface [polypeptide binding]; other site 383629001760 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 383629001761 RuvA N terminal domain; Region: RuvA_N; pfam01330 383629001762 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 383629001763 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 383629001764 Walker A motif; other site 383629001765 ATP binding site [chemical binding]; other site 383629001766 Walker B motif; other site 383629001767 arginine finger; other site 383629001768 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 383629001769 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 383629001770 active site 383629001771 TolQ protein; Region: tolQ; TIGR02796 383629001772 TolR protein; Region: tolR; TIGR02801 383629001773 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 383629001774 transport protein TonB; Provisional; Region: PRK10819 383629001775 translocation protein TolB; Provisional; Region: tolB; PRK05137 383629001776 TolB amino-terminal domain; Region: TolB_N; pfam04052 383629001777 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 383629001778 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 383629001779 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 383629001780 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 383629001781 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 383629001782 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629001783 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629001784 ligand binding site [chemical binding]; other site 383629001785 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 383629001786 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 383629001787 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 383629001788 FtsH Extracellular; Region: FtsH_ext; pfam06480 383629001789 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 383629001790 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 383629001791 Walker A motif; other site 383629001792 ATP binding site [chemical binding]; other site 383629001793 Walker B motif; other site 383629001794 arginine finger; other site 383629001795 Peptidase family M41; Region: Peptidase_M41; pfam01434 383629001796 MOSC domain; Region: MOSC; pfam03473 383629001797 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 383629001798 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 383629001799 Potassium binding sites [ion binding]; other site 383629001800 Cesium cation binding sites [ion binding]; other site 383629001801 Chorismate mutase type II; Region: CM_2; smart00830 383629001802 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 383629001803 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 383629001804 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 383629001805 homodimer interface [polypeptide binding]; other site 383629001806 NADP binding site [chemical binding]; other site 383629001807 substrate binding site [chemical binding]; other site 383629001808 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 383629001809 CoenzymeA binding site [chemical binding]; other site 383629001810 subunit interaction site [polypeptide binding]; other site 383629001811 PHB binding site; other site 383629001812 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 383629001813 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 383629001814 putative active site [active] 383629001815 putative metal binding site [ion binding]; other site 383629001816 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 383629001817 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 383629001818 ATP binding site [chemical binding]; other site 383629001819 putative Mg++ binding site [ion binding]; other site 383629001820 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 383629001821 nucleotide binding region [chemical binding]; other site 383629001822 ATP-binding site [chemical binding]; other site 383629001823 DEAD/H associated; Region: DEAD_assoc; pfam08494 383629001824 RNA helicase; Region: RNA_helicase; pfam00910 383629001825 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 383629001826 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 383629001827 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 383629001828 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 383629001829 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629001830 TPR motif; other site 383629001831 binding surface 383629001832 TPR repeat; Region: TPR_11; pfam13414 383629001833 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 383629001834 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 383629001835 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 383629001836 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 383629001837 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 383629001838 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 383629001839 ATP binding site [chemical binding]; other site 383629001840 Walker A motif; other site 383629001841 hexamer interface [polypeptide binding]; other site 383629001842 Walker B motif; other site 383629001843 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 383629001844 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 383629001845 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 383629001846 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629001847 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629001848 ligand binding site [chemical binding]; other site 383629001849 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 383629001850 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 383629001851 BON domain; Region: BON; pfam04972 383629001852 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 383629001853 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 383629001854 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 383629001855 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 383629001856 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 383629001857 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629001858 catalytic residue [active] 383629001859 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 383629001860 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 383629001861 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 383629001862 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 383629001863 active site 383629001864 interdomain interaction site; other site 383629001865 putative metal-binding site [ion binding]; other site 383629001866 nucleotide binding site [chemical binding]; other site 383629001867 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 383629001868 domain I; other site 383629001869 DNA binding groove [nucleotide binding] 383629001870 phosphate binding site [ion binding]; other site 383629001871 domain II; other site 383629001872 domain III; other site 383629001873 nucleotide binding site [chemical binding]; other site 383629001874 catalytic site [active] 383629001875 domain IV; other site 383629001876 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 383629001877 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 383629001878 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 383629001879 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 383629001880 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 383629001881 DNA protecting protein DprA; Region: dprA; TIGR00732 383629001882 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 383629001883 protease TldD; Provisional; Region: tldD; PRK10735 383629001884 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 383629001885 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 383629001886 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 383629001887 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 383629001888 UbiA prenyltransferase family; Region: UbiA; pfam01040 383629001889 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 383629001890 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 383629001891 Subunit III/VIIa interface [polypeptide binding]; other site 383629001892 Phospholipid binding site [chemical binding]; other site 383629001893 Subunit I/III interface [polypeptide binding]; other site 383629001894 Subunit III/VIb interface [polypeptide binding]; other site 383629001895 Subunit III/VIa interface; other site 383629001896 Subunit III/Vb interface [polypeptide binding]; other site 383629001897 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 383629001898 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 383629001899 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 383629001900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629001901 catalytic residue [active] 383629001902 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 383629001903 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 383629001904 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 383629001905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 383629001906 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 383629001907 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 383629001908 FAD binding domain; Region: FAD_binding_4; pfam01565 383629001909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629001910 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 383629001911 putative substrate translocation pore; other site 383629001912 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 383629001913 Fasciclin domain; Region: Fasciclin; pfam02469 383629001914 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629001915 active site 383629001916 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 383629001917 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 383629001918 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 383629001919 Sulfate transporter family; Region: Sulfate_transp; pfam00916 383629001920 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 383629001921 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 383629001922 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 383629001923 trimer interface [polypeptide binding]; other site 383629001924 active site 383629001925 substrate binding site [chemical binding]; other site 383629001926 CoA binding site [chemical binding]; other site 383629001927 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 383629001928 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629001929 Coenzyme A binding pocket [chemical binding]; other site 383629001930 EcsC protein family; Region: EcsC; pfam12787 383629001931 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 383629001932 C factor cell-cell signaling protein; Provisional; Region: PRK09009 383629001933 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 383629001934 NADP binding site [chemical binding]; other site 383629001935 homodimer interface [polypeptide binding]; other site 383629001936 active site 383629001937 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629001938 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 383629001939 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 383629001940 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 383629001941 motif 1; other site 383629001942 dimer interface [polypeptide binding]; other site 383629001943 active site 383629001944 motif 2; other site 383629001945 motif 3; other site 383629001946 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 383629001947 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 383629001948 DALR anticodon binding domain; Region: DALR_1; pfam05746 383629001949 pyruvate phosphate dikinase; Provisional; Region: PRK09279 383629001950 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 383629001951 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 383629001952 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 383629001953 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 383629001954 Dihydroneopterin aldolase; Region: FolB; smart00905 383629001955 active site 383629001956 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 383629001957 dihydropteroate synthase; Region: DHPS; TIGR01496 383629001958 substrate binding pocket [chemical binding]; other site 383629001959 dimer interface [polypeptide binding]; other site 383629001960 inhibitor binding site; inhibition site 383629001961 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 383629001962 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 383629001963 active site 383629001964 substrate binding site [chemical binding]; other site 383629001965 metal binding site [ion binding]; metal-binding site 383629001966 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629001967 EamA-like transporter family; Region: EamA; pfam00892 383629001968 EamA-like transporter family; Region: EamA; pfam00892 383629001969 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 383629001970 ketol-acid reductoisomerase; Provisional; Region: PRK05479 383629001971 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 383629001972 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 383629001973 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629001974 AsnC family; Region: AsnC_trans_reg; pfam01037 383629001975 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629001976 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 383629001977 putative DNA binding site [nucleotide binding]; other site 383629001978 putative Zn2+ binding site [ion binding]; other site 383629001979 AsnC family; Region: AsnC_trans_reg; pfam01037 383629001980 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 383629001981 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 383629001982 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 383629001983 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 383629001984 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; cl17915 383629001985 motif II; other site 383629001986 Transcriptional regulators [Transcription]; Region: FadR; COG2186 383629001987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629001988 DNA-binding site [nucleotide binding]; DNA binding site 383629001989 FCD domain; Region: FCD; pfam07729 383629001990 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 383629001991 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 383629001992 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 383629001993 DXD motif; other site 383629001994 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 383629001995 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 383629001996 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 383629001997 catalytic site [active] 383629001998 subunit interface [polypeptide binding]; other site 383629001999 Yqey-like protein; Region: YqeY; pfam09424 383629002000 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 383629002001 arogenate dehydrogenase; Region: PLN02256 383629002002 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 383629002003 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 383629002004 Subunit I/III interface [polypeptide binding]; other site 383629002005 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 383629002006 D-pathway; other site 383629002007 Subunit I/VIIc interface [polypeptide binding]; other site 383629002008 Subunit I/IV interface [polypeptide binding]; other site 383629002009 Subunit I/II interface [polypeptide binding]; other site 383629002010 Low-spin heme (heme a) binding site [chemical binding]; other site 383629002011 Subunit I/VIIa interface [polypeptide binding]; other site 383629002012 Subunit I/VIa interface [polypeptide binding]; other site 383629002013 Dimer interface; other site 383629002014 Putative water exit pathway; other site 383629002015 Binuclear center (heme a3/CuB) [ion binding]; other site 383629002016 K-pathway; other site 383629002017 Subunit I/Vb interface [polypeptide binding]; other site 383629002018 Putative proton exit pathway; other site 383629002019 Subunit I/VIb interface; other site 383629002020 Subunit I/VIc interface [polypeptide binding]; other site 383629002021 Electron transfer pathway; other site 383629002022 Subunit I/VIIIb interface [polypeptide binding]; other site 383629002023 Subunit I/VIIb interface [polypeptide binding]; other site 383629002024 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 383629002025 HIT family signature motif; other site 383629002026 catalytic residue [active] 383629002027 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 383629002028 lipoate-protein ligase B; Provisional; Region: PRK14341 383629002029 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629002030 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629002031 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 383629002032 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629002033 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629002034 dimer interface [polypeptide binding]; other site 383629002035 conserved gate region; other site 383629002036 putative PBP binding loops; other site 383629002037 ABC-ATPase subunit interface; other site 383629002038 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 383629002039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629002040 dimer interface [polypeptide binding]; other site 383629002041 conserved gate region; other site 383629002042 ABC-ATPase subunit interface; other site 383629002043 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 383629002044 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629002045 Walker A/P-loop; other site 383629002046 ATP binding site [chemical binding]; other site 383629002047 Q-loop/lid; other site 383629002048 ABC transporter signature motif; other site 383629002049 Walker B; other site 383629002050 D-loop; other site 383629002051 H-loop/switch region; other site 383629002052 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629002053 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 383629002054 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629002055 Walker A/P-loop; other site 383629002056 ATP binding site [chemical binding]; other site 383629002057 Q-loop/lid; other site 383629002058 ABC transporter signature motif; other site 383629002059 Walker B; other site 383629002060 D-loop; other site 383629002061 H-loop/switch region; other site 383629002062 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 383629002063 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 383629002064 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 383629002065 potential frameshift: common BLAST hit: gi|159046278|ref|YP_001541950.1| integrase catalytic region 383629002066 Integrase core domain; Region: rve_3; cl15866 383629002067 Integrase core domain; Region: rve; pfam00665 383629002068 Winged helix-turn helix; Region: HTH_29; pfam13551 383629002069 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629002070 Integrase core domain; Region: rve; pfam00665 383629002071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629002072 Integrase core domain; Region: rve_3; pfam13683 383629002073 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 383629002074 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 383629002075 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 383629002076 active site 383629002077 dimer interface [polypeptide binding]; other site 383629002078 effector binding site; other site 383629002079 TSCPD domain; Region: TSCPD; pfam12637 383629002080 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 383629002081 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 383629002082 pyruvate kinase; Provisional; Region: PRK06247 383629002083 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 383629002084 domain interfaces; other site 383629002085 active site 383629002086 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 383629002087 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 383629002088 23S rRNA binding site [nucleotide binding]; other site 383629002089 L21 binding site [polypeptide binding]; other site 383629002090 L13 binding site [polypeptide binding]; other site 383629002091 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 383629002092 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 383629002093 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 383629002094 dimer interface [polypeptide binding]; other site 383629002095 motif 1; other site 383629002096 active site 383629002097 motif 2; other site 383629002098 motif 3; other site 383629002099 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 383629002100 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 383629002101 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 383629002102 putative tRNA-binding site [nucleotide binding]; other site 383629002103 B3/4 domain; Region: B3_4; pfam03483 383629002104 tRNA synthetase B5 domain; Region: B5; smart00874 383629002105 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 383629002106 dimer interface [polypeptide binding]; other site 383629002107 motif 1; other site 383629002108 motif 3; other site 383629002109 motif 2; other site 383629002110 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 383629002111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629002112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629002113 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 383629002114 dimerization interface [polypeptide binding]; other site 383629002115 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 383629002116 S-adenosylmethionine binding site [chemical binding]; other site 383629002117 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 383629002118 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629002119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629002120 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629002121 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 383629002122 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 383629002123 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 383629002124 Hint domain; Region: Hint_2; pfam13403 383629002125 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 383629002126 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 383629002127 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 383629002128 Ligand Binding Site [chemical binding]; other site 383629002129 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629002130 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 383629002131 putative DNA binding site [nucleotide binding]; other site 383629002132 putative Zn2+ binding site [ion binding]; other site 383629002133 AsnC family; Region: AsnC_trans_reg; pfam01037 383629002134 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 383629002135 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 383629002136 Cu(I) binding site [ion binding]; other site 383629002137 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 383629002138 Transcriptional regulator [Transcription]; Region: IclR; COG1414 383629002139 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 383629002140 Bacterial transcriptional regulator; Region: IclR; pfam01614 383629002141 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 383629002142 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 383629002143 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 383629002144 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629002145 DNA binding site [nucleotide binding] 383629002146 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 383629002147 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 383629002148 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629002149 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629002150 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 383629002151 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 383629002152 intersubunit interface [polypeptide binding]; other site 383629002153 active site 383629002154 zinc binding site [ion binding]; other site 383629002155 Na+ binding site [ion binding]; other site 383629002156 KduI/IolB family; Region: KduI; pfam04962 383629002157 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 383629002158 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 383629002159 substrate binding site [chemical binding]; other site 383629002160 ATP binding site [chemical binding]; other site 383629002161 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 383629002162 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 383629002163 dimer interface [polypeptide binding]; other site 383629002164 PYR/PP interface [polypeptide binding]; other site 383629002165 TPP binding site [chemical binding]; other site 383629002166 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 383629002167 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 383629002168 TPP-binding site [chemical binding]; other site 383629002169 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629002170 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629002171 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 383629002172 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 383629002173 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629002174 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629002175 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 383629002176 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629002177 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629002178 DNA binding site [nucleotide binding] 383629002179 domain linker motif; other site 383629002180 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_2; cd06278 383629002181 putative dimerization interface [polypeptide binding]; other site 383629002182 putative ligand binding site [chemical binding]; other site 383629002183 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 383629002184 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 383629002185 putative ligand binding site [chemical binding]; other site 383629002186 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629002187 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 383629002188 TM-ABC transporter signature motif; other site 383629002189 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 383629002190 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 383629002191 Walker A/P-loop; other site 383629002192 ATP binding site [chemical binding]; other site 383629002193 Q-loop/lid; other site 383629002194 ABC transporter signature motif; other site 383629002195 Walker B; other site 383629002196 D-loop; other site 383629002197 H-loop/switch region; other site 383629002198 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 383629002199 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 383629002200 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 383629002201 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 383629002202 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 383629002203 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 383629002204 active site 383629002205 intersubunit interface [polypeptide binding]; other site 383629002206 catalytic residue [active] 383629002207 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 383629002208 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 383629002209 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 383629002210 classical (c) SDRs; Region: SDR_c; cd05233 383629002211 NAD(P) binding site [chemical binding]; other site 383629002212 active site 383629002213 dihydroxy-acid dehydratase; Validated; Region: PRK06131 383629002214 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 383629002215 Melibiase; Region: Melibiase; pfam02065 383629002216 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629002217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629002218 dimer interface [polypeptide binding]; other site 383629002219 conserved gate region; other site 383629002220 putative PBP binding loops; other site 383629002221 ABC-ATPase subunit interface; other site 383629002222 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 383629002223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629002224 dimer interface [polypeptide binding]; other site 383629002225 conserved gate region; other site 383629002226 putative PBP binding loops; other site 383629002227 ABC-ATPase subunit interface; other site 383629002228 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629002229 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629002230 Transcriptional regulator [Transcription]; Region: IclR; COG1414 383629002231 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 383629002232 Bacterial transcriptional regulator; Region: IclR; pfam01614 383629002233 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 383629002234 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629002235 Walker A/P-loop; other site 383629002236 ATP binding site [chemical binding]; other site 383629002237 Q-loop/lid; other site 383629002238 ABC transporter signature motif; other site 383629002239 Walker B; other site 383629002240 D-loop; other site 383629002241 H-loop/switch region; other site 383629002242 TOBE domain; Region: TOBE_2; pfam08402 383629002243 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 383629002244 NADH(P)-binding; Region: NAD_binding_10; pfam13460 383629002245 NAD(P) binding site [chemical binding]; other site 383629002246 putative active site [active] 383629002247 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629002248 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 383629002249 putative C-terminal domain interface [polypeptide binding]; other site 383629002250 putative GSH binding site (G-site) [chemical binding]; other site 383629002251 putative dimer interface [polypeptide binding]; other site 383629002252 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 383629002253 dimer interface [polypeptide binding]; other site 383629002254 N-terminal domain interface [polypeptide binding]; other site 383629002255 substrate binding pocket (H-site) [chemical binding]; other site 383629002256 hypothetical protein; Provisional; Region: PRK11019 383629002257 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 383629002258 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 383629002259 active site 383629002260 Zn binding site [ion binding]; other site 383629002261 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 383629002262 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 383629002263 SCP-2 sterol transfer family; Region: SCP2; pfam02036 383629002264 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629002265 binding surface 383629002266 TPR repeat; Region: TPR_11; pfam13414 383629002267 TPR motif; other site 383629002268 TPR repeat; Region: TPR_11; pfam13414 383629002269 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 383629002270 nucleotide binding region [chemical binding]; other site 383629002271 ATP-binding site [chemical binding]; other site 383629002272 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 383629002273 RNA binding surface [nucleotide binding]; other site 383629002274 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 383629002275 4Fe-4S binding domain; Region: Fer4; pfam00037 383629002276 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 383629002277 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 383629002278 Ion channel; Region: Ion_trans_2; pfam07885 383629002279 cobalamin synthase; Reviewed; Region: cobS; PRK00235 383629002280 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 383629002281 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 383629002282 putative dimer interface [polypeptide binding]; other site 383629002283 active site pocket [active] 383629002284 putative cataytic base [active] 383629002285 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 383629002286 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 383629002287 TrkA-N domain; Region: TrkA_N; pfam02254 383629002288 PAS domain; Region: PAS_9; pfam13426 383629002289 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629002290 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 383629002291 AsnC family; Region: AsnC_trans_reg; pfam01037 383629002292 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 383629002293 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 383629002294 dimer interface [polypeptide binding]; other site 383629002295 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 383629002296 active site 383629002297 Fe binding site [ion binding]; other site 383629002298 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; cl00322 383629002299 Uncharacterized conserved protein [Function unknown]; Region: COG2968 383629002300 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 383629002301 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 383629002302 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 383629002303 homodimer interface [polypeptide binding]; other site 383629002304 substrate-cofactor binding pocket; other site 383629002305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629002306 catalytic residue [active] 383629002307 Homeodomain-like domain; Region: HTH_23; pfam13384 383629002308 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 383629002309 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 383629002310 active site 383629002311 metal binding site [ion binding]; metal-binding site 383629002312 interdomain interaction site; other site 383629002313 integrase; Provisional; Region: PRK09692 383629002314 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 383629002315 active site 383629002316 Int/Topo IB signature motif; other site 383629002317 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 383629002318 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 383629002319 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 383629002320 ATP binding site [chemical binding]; other site 383629002321 putative Mg++ binding site [ion binding]; other site 383629002322 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 383629002323 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 383629002324 FRG domain; Region: FRG; pfam08867 383629002325 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 383629002326 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 383629002327 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 383629002328 HsdM N-terminal domain; Region: HsdM_N; pfam12161 383629002329 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 383629002330 Methyltransferase domain; Region: Methyltransf_26; pfam13659 383629002331 multiple promoter invertase; Provisional; Region: mpi; PRK13413 383629002332 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 383629002333 catalytic residues [active] 383629002334 catalytic nucleophile [active] 383629002335 Presynaptic Site I dimer interface [polypeptide binding]; other site 383629002336 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 383629002337 Synaptic Flat tetramer interface [polypeptide binding]; other site 383629002338 Synaptic Site I dimer interface [polypeptide binding]; other site 383629002339 DNA binding site [nucleotide binding] 383629002340 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 383629002341 DNA-binding interface [nucleotide binding]; DNA binding site 383629002342 YaaC-like Protein; Region: YaaC; pfam14175 383629002343 Peptidase M15; Region: Peptidase_M15_3; cl01194 383629002344 Winged helix-turn helix; Region: HTH_29; pfam13551 383629002345 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629002346 Integrase core domain; Region: rve; pfam00665 383629002347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629002348 Integrase core domain; Region: rve_3; pfam13683 383629002349 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 383629002350 active site 383629002351 NTP binding site [chemical binding]; other site 383629002352 nucleic acid binding site [nucleotide binding]; other site 383629002353 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 383629002354 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 383629002355 active site 383629002356 Int/Topo IB signature motif; other site 383629002357 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 383629002358 dimer interface [polypeptide binding]; other site 383629002359 phosphorylation site [posttranslational modification] 383629002360 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 383629002361 ATP binding site [chemical binding]; other site 383629002362 Mg2+ binding site [ion binding]; other site 383629002363 G-X-G motif; other site 383629002364 Response regulator receiver domain; Region: Response_reg; pfam00072 383629002365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629002366 active site 383629002367 phosphorylation site [posttranslational modification] 383629002368 intermolecular recognition site; other site 383629002369 dimerization interface [polypeptide binding]; other site 383629002370 Autoinducer synthetase; Region: Autoind_synth; cl17404 383629002371 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 383629002372 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 383629002373 active site 383629002374 substrate binding site [chemical binding]; other site 383629002375 FMN binding site [chemical binding]; other site 383629002376 putative catalytic residues [active] 383629002377 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 383629002378 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 383629002379 TPP-binding site; other site 383629002380 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 383629002381 PYR/PP interface [polypeptide binding]; other site 383629002382 dimer interface [polypeptide binding]; other site 383629002383 TPP binding site [chemical binding]; other site 383629002384 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 383629002385 Ligand Binding Site [chemical binding]; other site 383629002386 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 383629002387 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 383629002388 NAD(P) binding site [chemical binding]; other site 383629002389 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 383629002390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629002391 NAD(P) binding site [chemical binding]; other site 383629002392 active site 383629002393 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 383629002394 histidinol dehydrogenase; Region: hisD; TIGR00069 383629002395 NAD binding site [chemical binding]; other site 383629002396 dimerization interface [polypeptide binding]; other site 383629002397 product binding site; other site 383629002398 substrate binding site [chemical binding]; other site 383629002399 zinc binding site [ion binding]; other site 383629002400 catalytic residues [active] 383629002401 DctM-like transporters; Region: DctM; pfam06808 383629002402 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 383629002403 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 383629002404 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 383629002405 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629002406 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629002407 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629002408 DNA binding site [nucleotide binding] 383629002409 domain linker motif; other site 383629002410 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 383629002411 putative dimerization interface [polypeptide binding]; other site 383629002412 putative ligand binding site [chemical binding]; other site 383629002413 hypothetical protein; Provisional; Region: PRK07482 383629002414 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 383629002415 inhibitor-cofactor binding pocket; inhibition site 383629002416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629002417 catalytic residue [active] 383629002418 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 383629002419 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629002420 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 383629002421 active site 383629002422 acetylornithine deacetylase; Provisional; Region: PRK07522 383629002423 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 383629002424 metal binding site [ion binding]; metal-binding site 383629002425 putative dimer interface [polypeptide binding]; other site 383629002426 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 383629002427 beta-galactosidase; Region: BGL; TIGR03356 383629002428 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629002429 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629002430 DNA binding site [nucleotide binding] 383629002431 domain linker motif; other site 383629002432 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 383629002433 ligand binding site [chemical binding]; other site 383629002434 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629002435 Z1 domain; Region: Z1; pfam10593 383629002436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629002437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629002438 dimer interface [polypeptide binding]; other site 383629002439 putative PBP binding loops; other site 383629002440 ABC-ATPase subunit interface; other site 383629002441 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629002442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629002443 dimer interface [polypeptide binding]; other site 383629002444 conserved gate region; other site 383629002445 putative PBP binding loops; other site 383629002446 ABC-ATPase subunit interface; other site 383629002447 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 383629002448 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 383629002449 active site 383629002450 catalytic site [active] 383629002451 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 383629002452 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 383629002453 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629002454 Walker A/P-loop; other site 383629002455 ATP binding site [chemical binding]; other site 383629002456 Q-loop/lid; other site 383629002457 ABC transporter signature motif; other site 383629002458 Walker B; other site 383629002459 D-loop; other site 383629002460 H-loop/switch region; other site 383629002461 TOBE domain; Region: TOBE_2; pfam08402 383629002462 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 383629002463 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 383629002464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629002465 HAMP domain; Region: HAMP; pfam00672 383629002466 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 383629002467 dimer interface [polypeptide binding]; other site 383629002468 phosphorylation site [posttranslational modification] 383629002469 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 383629002470 ATP binding site [chemical binding]; other site 383629002471 Mg2+ binding site [ion binding]; other site 383629002472 G-X-G motif; other site 383629002473 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 383629002474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629002475 active site 383629002476 phosphorylation site [posttranslational modification] 383629002477 intermolecular recognition site; other site 383629002478 dimerization interface [polypeptide binding]; other site 383629002479 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 383629002480 DNA binding site [nucleotide binding] 383629002481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 383629002482 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 383629002483 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 383629002484 Predicted permeases [General function prediction only]; Region: COG0679 383629002485 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 383629002486 putative hydrolase; Provisional; Region: PRK02113 383629002487 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 383629002488 active site 383629002489 DNA polymerase III subunit delta'; Validated; Region: PRK07471 383629002490 DNA polymerase III subunit delta'; Validated; Region: PRK08485 383629002491 thymidylate kinase; Validated; Region: tmk; PRK00698 383629002492 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 383629002493 TMP-binding site; other site 383629002494 ATP-binding site [chemical binding]; other site 383629002495 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 383629002496 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 383629002497 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 383629002498 Sporulation related domain; Region: SPOR; pfam05036 383629002499 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 383629002500 active site 383629002501 SAM binding site [chemical binding]; other site 383629002502 homodimer interface [polypeptide binding]; other site 383629002503 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 383629002504 active site 383629002505 SAM binding site [chemical binding]; other site 383629002506 homodimer interface [polypeptide binding]; other site 383629002507 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 383629002508 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 383629002509 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 383629002510 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 383629002511 active site 383629002512 SAM binding site [chemical binding]; other site 383629002513 homodimer interface [polypeptide binding]; other site 383629002514 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 383629002515 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 383629002516 active site 383629002517 putative homodimer interface [polypeptide binding]; other site 383629002518 SAM binding site [chemical binding]; other site 383629002519 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 383629002520 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 383629002521 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 383629002522 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 383629002523 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 383629002524 active site 383629002525 SAM binding site [chemical binding]; other site 383629002526 homodimer interface [polypeptide binding]; other site 383629002527 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 383629002528 active site 383629002529 SAM binding site [chemical binding]; other site 383629002530 homodimer interface [polypeptide binding]; other site 383629002531 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 383629002532 Precorrin-8X methylmutase; Region: CbiC; pfam02570 383629002533 precorrin-3B synthase; Region: CobG; TIGR02435 383629002534 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 383629002535 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 383629002536 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 383629002537 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 383629002538 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 383629002539 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 383629002540 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 383629002541 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 383629002542 homodimer interface [polypeptide binding]; other site 383629002543 Walker A motif; other site 383629002544 ATP binding site [chemical binding]; other site 383629002545 hydroxycobalamin binding site [chemical binding]; other site 383629002546 Walker B motif; other site 383629002547 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 383629002548 active site 383629002549 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 383629002550 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629002551 active site 383629002552 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 383629002553 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 383629002554 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 383629002555 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 383629002556 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 383629002557 Imelysin; Region: Peptidase_M75; pfam09375 383629002558 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 383629002559 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 383629002560 Imelysin; Region: Peptidase_M75; cl09159 383629002561 Hemin uptake protein hemP; Region: hemP; pfam10636 383629002562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629002563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629002564 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 383629002565 dimerization interface [polypeptide binding]; other site 383629002566 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 383629002567 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 383629002568 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 383629002569 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 383629002570 active site 383629002571 HIGH motif; other site 383629002572 KMSKS motif; other site 383629002573 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 383629002574 tRNA binding surface [nucleotide binding]; other site 383629002575 anticodon binding site; other site 383629002576 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 383629002577 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629002578 putative substrate translocation pore; other site 383629002579 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 383629002580 active site 383629002581 catalytic residue [active] 383629002582 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 383629002583 active site 383629002584 catalytic residue [active] 383629002585 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 383629002586 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 383629002587 active site 383629002588 catalytic tetrad [active] 383629002589 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629002590 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 383629002591 conserved cys residue [active] 383629002592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629002593 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 383629002594 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 383629002595 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 383629002596 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 383629002597 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 383629002598 active site 383629002599 short chain dehydrogenase; Provisional; Region: PRK12829 383629002600 classical (c) SDRs; Region: SDR_c; cd05233 383629002601 NAD(P) binding site [chemical binding]; other site 383629002602 active site 383629002603 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 383629002604 non-specific DNA binding site [nucleotide binding]; other site 383629002605 salt bridge; other site 383629002606 sequence-specific DNA binding site [nucleotide binding]; other site 383629002607 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 383629002608 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 383629002609 Fatty acid desaturase; Region: FA_desaturase; pfam00487 383629002610 putative di-iron ligands [ion binding]; other site 383629002611 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 383629002612 nudix motif; other site 383629002613 Protein of unknown function (DUF983); Region: DUF983; cl02211 383629002614 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 383629002615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629002616 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 383629002617 DNA binding residues [nucleotide binding] 383629002618 Heavy-metal resistance; Region: Metal_resist; pfam13801 383629002619 response regulator PleD; Reviewed; Region: pleD; PRK09581 383629002620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629002621 active site 383629002622 phosphorylation site [posttranslational modification] 383629002623 intermolecular recognition site; other site 383629002624 dimerization interface [polypeptide binding]; other site 383629002625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629002626 metal binding site [ion binding]; metal-binding site 383629002627 active site 383629002628 I-site; other site 383629002629 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 383629002630 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 383629002631 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 383629002632 motif II; other site 383629002633 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 383629002634 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 383629002635 Heme NO binding; Region: HNOB; pfam07700 383629002636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 383629002637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629002638 metal binding site [ion binding]; metal-binding site 383629002639 active site 383629002640 I-site; other site 383629002641 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 383629002642 DHH family; Region: DHH; pfam01368 383629002643 DHHA1 domain; Region: DHHA1; pfam02272 383629002644 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 383629002645 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 383629002646 putative active site [active] 383629002647 homoserine dehydrogenase; Provisional; Region: PRK06349 383629002648 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 383629002649 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 383629002650 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 383629002651 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629002652 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629002653 Pirin-related protein [General function prediction only]; Region: COG1741 383629002654 Pirin; Region: Pirin; pfam02678 383629002655 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 383629002656 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 383629002657 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 383629002658 TadE-like protein; Region: TadE; pfam07811 383629002659 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 383629002660 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 383629002661 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 383629002662 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 383629002663 NAD(P) binding site [chemical binding]; other site 383629002664 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 383629002665 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629002666 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 383629002667 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 383629002668 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 383629002669 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629002670 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629002671 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629002672 DNA primase, catalytic core; Region: dnaG; TIGR01391 383629002673 CHC2 zinc finger; Region: zf-CHC2; cl17510 383629002674 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 383629002675 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 383629002676 active site 383629002677 metal binding site [ion binding]; metal-binding site 383629002678 interdomain interaction site; other site 383629002679 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 383629002680 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 383629002681 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 383629002682 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 383629002683 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 383629002684 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629002685 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 383629002686 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 383629002687 DNA binding residues [nucleotide binding] 383629002688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629002689 NAD(P) binding site [chemical binding]; other site 383629002690 active site 383629002691 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 383629002692 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 383629002693 ATP cone domain; Region: ATP-cone; pfam03477 383629002694 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 383629002695 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 383629002696 catalytic motif [active] 383629002697 Zn binding site [ion binding]; other site 383629002698 RibD C-terminal domain; Region: RibD_C; cl17279 383629002699 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 383629002700 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 383629002701 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 383629002702 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 383629002703 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 383629002704 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 383629002705 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 383629002706 Lumazine binding domain; Region: Lum_binding; pfam00677 383629002707 Lumazine binding domain; Region: Lum_binding; pfam00677 383629002708 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 383629002709 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 383629002710 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 383629002711 dimerization interface [polypeptide binding]; other site 383629002712 active site 383629002713 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 383629002714 homopentamer interface [polypeptide binding]; other site 383629002715 active site 383629002716 transcription antitermination factor NusB; Region: nusB; TIGR01951 383629002717 putative RNA binding site [nucleotide binding]; other site 383629002718 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 383629002719 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 383629002720 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 383629002721 RNA binding surface [nucleotide binding]; other site 383629002722 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 383629002723 active site 383629002724 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 383629002725 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 383629002726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629002727 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 383629002728 DNA binding residues [nucleotide binding] 383629002729 Cache domain; Region: Cache_2; pfam08269 383629002730 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 383629002731 dimerization interface [polypeptide binding]; other site 383629002732 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629002733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629002734 dimer interface [polypeptide binding]; other site 383629002735 putative CheW interface [polypeptide binding]; other site 383629002736 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 383629002737 substrate binding site [chemical binding]; other site 383629002738 ATP binding site [chemical binding]; other site 383629002739 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 383629002740 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 383629002741 ATP binding site [chemical binding]; other site 383629002742 substrate interface [chemical binding]; other site 383629002743 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 383629002744 active site residue [active] 383629002745 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 383629002746 thiamine phosphate binding site [chemical binding]; other site 383629002747 active site 383629002748 pyrophosphate binding site [ion binding]; other site 383629002749 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 383629002750 ThiS interaction site; other site 383629002751 putative active site [active] 383629002752 tetramer interface [polypeptide binding]; other site 383629002753 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 383629002754 thiS-thiF/thiG interaction site; other site 383629002755 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 383629002756 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 383629002757 ThiC-associated domain; Region: ThiC-associated; pfam13667 383629002758 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 383629002759 biotin synthase; Region: bioB; TIGR00433 383629002760 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 383629002761 FeS/SAM binding site; other site 383629002762 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 383629002763 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 383629002764 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629002765 catalytic residue [active] 383629002766 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 383629002767 AAA domain; Region: AAA_26; pfam13500 383629002768 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 383629002769 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 383629002770 inhibitor-cofactor binding pocket; inhibition site 383629002771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629002772 catalytic residue [active] 383629002773 Protein of unknown function (DUF452); Region: DUF452; cl01062 383629002774 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 383629002775 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 383629002776 S-adenosylmethionine binding site [chemical binding]; other site 383629002777 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 383629002778 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 383629002779 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 383629002780 DNA binding residues [nucleotide binding] 383629002781 dimer interface [polypeptide binding]; other site 383629002782 copper binding site [ion binding]; other site 383629002783 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 383629002784 Methylamine utilisation protein MauE; Region: MauE; pfam07291 383629002785 CopC domain; Region: CopC; pfam04234 383629002786 Copper resistance protein D; Region: CopD; cl00563 383629002787 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 383629002788 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 383629002789 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 383629002790 Cytochrome c; Region: Cytochrom_C; pfam00034 383629002791 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 383629002792 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 383629002793 DNA binding residues [nucleotide binding] 383629002794 dimer interface [polypeptide binding]; other site 383629002795 putative metal binding site [ion binding]; other site 383629002796 Superfamily II helicase [General function prediction only]; Region: COG1204 383629002797 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 383629002798 ATP binding site [chemical binding]; other site 383629002799 putative Mg++ binding site [ion binding]; other site 383629002800 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 383629002801 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 383629002802 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 383629002803 catalytic residues [active] 383629002804 catalytic nucleophile [active] 383629002805 Presynaptic Site I dimer interface [polypeptide binding]; other site 383629002806 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 383629002807 Synaptic Flat tetramer interface [polypeptide binding]; other site 383629002808 Synaptic Site I dimer interface [polypeptide binding]; other site 383629002809 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 383629002810 DNA-binding interface [nucleotide binding]; DNA binding site 383629002811 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 383629002812 non-specific DNA binding site [nucleotide binding]; other site 383629002813 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629002814 salt bridge; other site 383629002815 sequence-specific DNA binding site [nucleotide binding]; other site 383629002816 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 383629002817 DNA methylase; Region: N6_N4_Mtase; pfam01555 383629002818 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 383629002819 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 383629002820 S-adenosylmethionine binding site [chemical binding]; other site 383629002821 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 383629002822 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629002823 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 383629002824 non-specific DNA binding site [nucleotide binding]; other site 383629002825 salt bridge; other site 383629002826 sequence-specific DNA binding site [nucleotide binding]; other site 383629002827 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 383629002828 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 383629002829 active site 383629002830 catalytic residues [active] 383629002831 DNA binding site [nucleotide binding] 383629002832 Int/Topo IB signature motif; other site 383629002833 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 383629002834 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 383629002835 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 383629002836 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 383629002837 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 383629002838 metal binding site [ion binding]; metal-binding site 383629002839 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 383629002840 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 383629002841 substrate binding site [chemical binding]; other site 383629002842 glutamase interaction surface [polypeptide binding]; other site 383629002843 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 383629002844 Domain of unknown function DUF302; Region: DUF302; pfam03625 383629002845 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 383629002846 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 383629002847 catalytic residues [active] 383629002848 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 383629002849 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 383629002850 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 383629002851 putative catalytic residues [active] 383629002852 Cupin; Region: Cupin_6; pfam12852 383629002853 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629002854 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 383629002855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629002856 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 383629002857 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 383629002858 putative active site [active] 383629002859 oxyanion strand; other site 383629002860 catalytic triad [active] 383629002861 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 383629002862 putative active site pocket [active] 383629002863 4-fold oligomerization interface [polypeptide binding]; other site 383629002864 metal binding residues [ion binding]; metal-binding site 383629002865 3-fold/trimer interface [polypeptide binding]; other site 383629002866 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629002867 AsnC family; Region: AsnC_trans_reg; pfam01037 383629002868 aminotransferase; Provisional; Region: PRK06105 383629002869 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 383629002870 inhibitor-cofactor binding pocket; inhibition site 383629002871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629002872 catalytic residue [active] 383629002873 Restriction endonuclease NaeI; Region: NaeI; pfam09126 383629002874 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 383629002875 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 383629002876 cofactor binding site; other site 383629002877 DNA binding site [nucleotide binding] 383629002878 substrate interaction site [chemical binding]; other site 383629002879 pyruvate carboxylase; Reviewed; Region: PRK12999 383629002880 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 383629002881 ATP-grasp domain; Region: ATP-grasp_4; cl17255 383629002882 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 383629002883 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 383629002884 active site 383629002885 catalytic residues [active] 383629002886 metal binding site [ion binding]; metal-binding site 383629002887 homodimer binding site [polypeptide binding]; other site 383629002888 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 383629002889 carboxyltransferase (CT) interaction site; other site 383629002890 biotinylation site [posttranslational modification]; other site 383629002891 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 383629002892 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 383629002893 phosphate binding site [ion binding]; other site 383629002894 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 383629002895 GAF domain; Region: GAF_3; pfam13492 383629002896 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 383629002897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629002898 metal binding site [ion binding]; metal-binding site 383629002899 active site 383629002900 I-site; other site 383629002901 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 383629002902 Part of AAA domain; Region: AAA_19; pfam13245 383629002903 Family description; Region: UvrD_C_2; pfam13538 383629002904 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 383629002905 Domain of unknown function DUF59; Region: DUF59; pfam01883 383629002906 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 383629002907 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 383629002908 cell division protein MraZ; Reviewed; Region: PRK00326 383629002909 MraZ protein; Region: MraZ; pfam02381 383629002910 MraZ protein; Region: MraZ; pfam02381 383629002911 MraW methylase family; Region: Methyltransf_5; cl17771 383629002912 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 383629002913 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 383629002914 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 383629002915 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 383629002916 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 383629002917 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 383629002918 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 383629002919 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 383629002920 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 383629002921 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 383629002922 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 383629002923 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 383629002924 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 383629002925 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 383629002926 Mg++ binding site [ion binding]; other site 383629002927 putative catalytic motif [active] 383629002928 putative substrate binding site [chemical binding]; other site 383629002929 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 383629002930 glutaminase; Provisional; Region: PRK00971 383629002931 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 383629002932 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 383629002933 NAD(P) binding pocket [chemical binding]; other site 383629002934 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 383629002935 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 383629002936 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629002937 MarR family; Region: MarR_2; pfam12802 383629002938 Uncharacterized conserved protein [Function unknown]; Region: COG1359 383629002939 HI0933-like protein; Region: HI0933_like; pfam03486 383629002940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629002941 cell division protein FtsW; Region: ftsW; TIGR02614 383629002942 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 383629002943 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 383629002944 active site 383629002945 homodimer interface [polypeptide binding]; other site 383629002946 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 383629002947 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 383629002948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 383629002949 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 383629002950 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 383629002951 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 383629002952 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 383629002953 FAD binding domain; Region: FAD_binding_4; pfam01565 383629002954 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 383629002955 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 383629002956 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 383629002957 ATP-grasp domain; Region: ATP-grasp_4; cl17255 383629002958 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 383629002959 Cell division protein FtsQ; Region: FtsQ; pfam03799 383629002960 Cell division protein FtsA; Region: FtsA; smart00842 383629002961 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 383629002962 Cell division protein FtsA; Region: FtsA; pfam14450 383629002963 cell division protein FtsZ; Validated; Region: PRK09330 383629002964 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 383629002965 nucleotide binding site [chemical binding]; other site 383629002966 SulA interaction site; other site 383629002967 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 383629002968 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 383629002969 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 383629002970 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 383629002971 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 383629002972 Walker A/P-loop; other site 383629002973 ATP binding site [chemical binding]; other site 383629002974 Q-loop/lid; other site 383629002975 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 383629002976 ABC transporter signature motif; other site 383629002977 Walker B; other site 383629002978 D-loop; other site 383629002979 H-loop/switch region; other site 383629002980 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 383629002981 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 383629002982 Cl- selectivity filter; other site 383629002983 Cl- binding residues [ion binding]; other site 383629002984 pore gating glutamate residue; other site 383629002985 dimer interface [polypeptide binding]; other site 383629002986 Domain of unknown function (DUF427); Region: DUF427; pfam04248 383629002987 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629002988 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629002989 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 383629002990 active site 383629002991 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 383629002992 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 383629002993 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 383629002994 metal ion-dependent adhesion site (MIDAS); other site 383629002995 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 383629002996 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 383629002997 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 383629002998 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 383629002999 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 383629003000 ATP binding site [chemical binding]; other site 383629003001 Mg++ binding site [ion binding]; other site 383629003002 motif III; other site 383629003003 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 383629003004 nucleotide binding region [chemical binding]; other site 383629003005 ATP-binding site [chemical binding]; other site 383629003006 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 383629003007 RNA binding site [nucleotide binding]; other site 383629003008 beta-lactamase TEM; Provisional; Region: PRK15442 383629003009 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 383629003010 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 383629003011 HSP70 interaction site [polypeptide binding]; other site 383629003012 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 383629003013 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 383629003014 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 383629003015 GatB domain; Region: GatB_Yqey; smart00845 383629003016 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 383629003017 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 383629003018 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 383629003019 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 383629003020 RNA binding site [nucleotide binding]; other site 383629003021 aminopeptidase N; Provisional; Region: pepN; PRK14015 383629003022 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 383629003023 Zn binding site [ion binding]; other site 383629003024 malate synthase G; Provisional; Region: PRK02999 383629003025 active site 383629003026 Domain of unknown function (DUF336); Region: DUF336; cl01249 383629003027 Peptidase C26; Region: Peptidase_C26; pfam07722 383629003028 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 383629003029 catalytic triad [active] 383629003030 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 383629003031 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 383629003032 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 383629003033 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 383629003034 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 383629003035 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 383629003036 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 383629003037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629003038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629003039 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 383629003040 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 383629003041 kynureninase; Region: kynureninase; TIGR01814 383629003042 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629003043 catalytic residue [active] 383629003044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 383629003045 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 383629003046 classical (c) SDRs; Region: SDR_c; cd05233 383629003047 NAD(P) binding site [chemical binding]; other site 383629003048 active site 383629003049 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 383629003050 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 383629003051 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 383629003052 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 383629003053 ligand binding site [chemical binding]; other site 383629003054 homodimer interface [polypeptide binding]; other site 383629003055 NAD(P) binding site [chemical binding]; other site 383629003056 trimer interface B [polypeptide binding]; other site 383629003057 trimer interface A [polypeptide binding]; other site 383629003058 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 383629003059 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 383629003060 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 383629003061 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629003062 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 383629003063 active site 383629003064 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 383629003065 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 383629003066 DNA binding residues [nucleotide binding] 383629003067 putative dimer interface [polypeptide binding]; other site 383629003068 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 383629003069 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 383629003070 Sulphur transport; Region: Sulf_transp; pfam04143 383629003071 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 383629003072 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 383629003073 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629003074 dimer interface [polypeptide binding]; other site 383629003075 conserved gate region; other site 383629003076 putative PBP binding loops; other site 383629003077 ABC-ATPase subunit interface; other site 383629003078 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629003079 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629003080 dimer interface [polypeptide binding]; other site 383629003081 conserved gate region; other site 383629003082 putative PBP binding loops; other site 383629003083 ABC-ATPase subunit interface; other site 383629003084 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629003085 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 383629003086 peptide binding site [polypeptide binding]; other site 383629003087 dimer interface [polypeptide binding]; other site 383629003088 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629003089 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 383629003090 Walker A/P-loop; other site 383629003091 ATP binding site [chemical binding]; other site 383629003092 Q-loop/lid; other site 383629003093 ABC transporter signature motif; other site 383629003094 Walker B; other site 383629003095 D-loop; other site 383629003096 H-loop/switch region; other site 383629003097 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 383629003098 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629003099 Walker A/P-loop; other site 383629003100 ATP binding site [chemical binding]; other site 383629003101 Q-loop/lid; other site 383629003102 ABC transporter signature motif; other site 383629003103 Walker B; other site 383629003104 D-loop; other site 383629003105 H-loop/switch region; other site 383629003106 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 383629003107 acetylornithine deacetylase; Provisional; Region: PRK07522 383629003108 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 383629003109 metal binding site [ion binding]; metal-binding site 383629003110 putative dimer interface [polypeptide binding]; other site 383629003111 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 383629003112 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 383629003113 metal binding site [ion binding]; metal-binding site 383629003114 putative dimer interface [polypeptide binding]; other site 383629003115 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 383629003116 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 383629003117 metal binding site [ion binding]; metal-binding site 383629003118 putative dimer interface [polypeptide binding]; other site 383629003119 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 383629003120 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 383629003121 metal binding site [ion binding]; metal-binding site 383629003122 putative dimer interface [polypeptide binding]; other site 383629003123 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 383629003124 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 383629003125 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 383629003126 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 383629003127 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 383629003128 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 383629003129 FeS/SAM binding site; other site 383629003130 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 383629003131 A new structural DNA glycosylase; Region: AlkD_like; cd06561 383629003132 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 383629003133 active site 383629003134 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 383629003135 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 383629003136 glutaminase active site [active] 383629003137 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 383629003138 dimer interface [polypeptide binding]; other site 383629003139 active site 383629003140 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 383629003141 dimer interface [polypeptide binding]; other site 383629003142 active site 383629003143 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 383629003144 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 383629003145 Substrate binding site; other site 383629003146 Mg++ binding site; other site 383629003147 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 383629003148 active site 383629003149 substrate binding site [chemical binding]; other site 383629003150 CoA binding site [chemical binding]; other site 383629003151 phosphoglycolate phosphatase; Provisional; Region: PRK13222 383629003152 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 383629003153 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 383629003154 motif II; other site 383629003155 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 383629003156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629003157 catalytic residue [active] 383629003158 Hint domain; Region: Hint_2; pfam13403 383629003159 isovaleryl-CoA dehydrogenase; Region: PLN02519 383629003160 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 383629003161 substrate binding site [chemical binding]; other site 383629003162 FAD binding site [chemical binding]; other site 383629003163 catalytic base [active] 383629003164 OmpW family; Region: OmpW; cl17427 383629003165 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 383629003166 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 383629003167 active site 383629003168 acyl-activating enzyme (AAE) consensus motif; other site 383629003169 putative CoA binding site [chemical binding]; other site 383629003170 AMP binding site [chemical binding]; other site 383629003171 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 383629003172 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 383629003173 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 383629003174 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 383629003175 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 383629003176 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 383629003177 carboxyltransferase (CT) interaction site; other site 383629003178 biotinylation site [posttranslational modification]; other site 383629003179 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 383629003180 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 383629003181 active site 383629003182 catalytic residues [active] 383629003183 metal binding site [ion binding]; metal-binding site 383629003184 enoyl-CoA hydratase; Provisional; Region: PRK07468 383629003185 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 383629003186 substrate binding site [chemical binding]; other site 383629003187 oxyanion hole (OAH) forming residues; other site 383629003188 trimer interface [polypeptide binding]; other site 383629003189 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 383629003190 NADH dehydrogenase subunit B; Validated; Region: PRK06411 383629003191 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 383629003192 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 383629003193 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 383629003194 NADH dehydrogenase subunit D; Validated; Region: PRK06075 383629003195 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 383629003196 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 383629003197 putative dimer interface [polypeptide binding]; other site 383629003198 [2Fe-2S] cluster binding site [ion binding]; other site 383629003199 Uncharacterized conserved protein [Function unknown]; Region: COG3743 383629003200 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 383629003201 SLBB domain; Region: SLBB; pfam10531 383629003202 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 383629003203 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 383629003204 NADH dehydrogenase subunit G; Validated; Region: PRK09130 383629003205 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 383629003206 catalytic loop [active] 383629003207 iron binding site [ion binding]; other site 383629003208 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 383629003209 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 383629003210 molybdopterin cofactor binding site; other site 383629003211 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 383629003212 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 383629003213 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 383629003214 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 383629003215 4Fe-4S binding domain; Region: Fer4; pfam00037 383629003216 4Fe-4S binding domain; Region: Fer4; pfam00037 383629003217 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 383629003218 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 383629003219 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 383629003220 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 383629003221 hydrogenase 4 subunit D; Validated; Region: PRK06525 383629003222 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 383629003223 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 383629003224 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 383629003225 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 383629003226 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 383629003227 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 383629003228 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 383629003229 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 383629003230 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 383629003231 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 383629003232 pantothenate kinase; Reviewed; Region: PRK13318 383629003233 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 383629003234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 383629003235 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 383629003236 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 383629003237 DEAD-like helicases superfamily; Region: DEXDc; smart00487 383629003238 ATP binding site [chemical binding]; other site 383629003239 Mg++ binding site [ion binding]; other site 383629003240 motif III; other site 383629003241 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 383629003242 nucleotide binding region [chemical binding]; other site 383629003243 ATP-binding site [chemical binding]; other site 383629003244 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629003245 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 383629003246 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 383629003247 G1 box; other site 383629003248 putative GEF interaction site [polypeptide binding]; other site 383629003249 GTP/Mg2+ binding site [chemical binding]; other site 383629003250 Switch I region; other site 383629003251 G2 box; other site 383629003252 G3 box; other site 383629003253 Switch II region; other site 383629003254 G4 box; other site 383629003255 G5 box; other site 383629003256 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 383629003257 SnoaL-like domain; Region: SnoaL_2; pfam12680 383629003258 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 383629003259 protein-splicing catalytic site; other site 383629003260 thioester formation/cholesterol transfer; other site 383629003261 short chain dehydrogenase; Provisional; Region: PRK08339 383629003262 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 383629003263 putative NAD(P) binding site [chemical binding]; other site 383629003264 putative active site [active] 383629003265 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 383629003266 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 383629003267 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 383629003268 Walker A/P-loop; other site 383629003269 ATP binding site [chemical binding]; other site 383629003270 Q-loop/lid; other site 383629003271 ABC transporter signature motif; other site 383629003272 Walker B; other site 383629003273 D-loop; other site 383629003274 H-loop/switch region; other site 383629003275 Predicted transcriptional regulator [Transcription]; Region: COG2378 383629003276 HTH domain; Region: HTH_11; pfam08279 383629003277 WYL domain; Region: WYL; pfam13280 383629003278 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 383629003279 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 383629003280 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 383629003281 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 383629003282 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 383629003283 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 383629003284 Walker A motif; other site 383629003285 ATP binding site [chemical binding]; other site 383629003286 Walker B motif; other site 383629003287 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 383629003288 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 383629003289 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 383629003290 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 383629003291 Peptidase family M23; Region: Peptidase_M23; pfam01551 383629003292 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 383629003293 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 383629003294 S-adenosylmethionine binding site [chemical binding]; other site 383629003295 Survival protein SurE; Region: SurE; cl00448 383629003296 classical (c) SDRs; Region: SDR_c; cd05233 383629003297 NAD(P) binding site [chemical binding]; other site 383629003298 active site 383629003299 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 383629003300 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 383629003301 amidophosphoribosyltransferase; Provisional; Region: PRK09123 383629003302 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 383629003303 active site 383629003304 tetramer interface [polypeptide binding]; other site 383629003305 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629003306 active site 383629003307 Hint domain; Region: Hint_2; pfam13403 383629003308 Colicin V production protein; Region: Colicin_V; pfam02674 383629003309 DNA repair protein RadA; Provisional; Region: PRK11823 383629003310 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 383629003311 Walker A motif/ATP binding site; other site 383629003312 ATP binding site [chemical binding]; other site 383629003313 Walker B motif; other site 383629003314 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 383629003315 Paraquat-inducible protein A; Region: PqiA; pfam04403 383629003316 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 383629003317 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 383629003318 Walker A/P-loop; other site 383629003319 ATP binding site [chemical binding]; other site 383629003320 Q-loop/lid; other site 383629003321 ABC transporter signature motif; other site 383629003322 Walker B; other site 383629003323 D-loop; other site 383629003324 H-loop/switch region; other site 383629003325 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 383629003326 Permease; Region: Permease; pfam02405 383629003327 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 383629003328 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 383629003329 active site 383629003330 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629003331 dimer interface [polypeptide binding]; other site 383629003332 substrate binding site [chemical binding]; other site 383629003333 catalytic residues [active] 383629003334 replicative DNA helicase; Provisional; Region: PRK09165 383629003335 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 383629003336 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 383629003337 Walker A motif; other site 383629003338 ATP binding site [chemical binding]; other site 383629003339 Walker B motif; other site 383629003340 DNA binding loops [nucleotide binding] 383629003341 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629003342 active site 383629003343 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 383629003344 active site 383629003345 substrate binding pocket [chemical binding]; other site 383629003346 dimer interface [polypeptide binding]; other site 383629003347 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629003348 MoxR-like ATPases [General function prediction only]; Region: COG0714 383629003349 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 383629003350 Walker A motif; other site 383629003351 ATP binding site [chemical binding]; other site 383629003352 Walker B motif; other site 383629003353 arginine finger; other site 383629003354 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 383629003355 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 383629003356 metal ion-dependent adhesion site (MIDAS); other site 383629003357 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629003358 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629003359 ligand binding site [chemical binding]; other site 383629003360 GTPase RsgA; Reviewed; Region: PRK01889 383629003361 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 383629003362 GTPase/Zn-binding domain interface [polypeptide binding]; other site 383629003363 GTP/Mg2+ binding site [chemical binding]; other site 383629003364 G4 box; other site 383629003365 G5 box; other site 383629003366 G1 box; other site 383629003367 Switch I region; other site 383629003368 G2 box; other site 383629003369 G3 box; other site 383629003370 Switch II region; other site 383629003371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 383629003372 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 383629003373 Predicted transcriptional regulator [Transcription]; Region: COG2944 383629003374 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 383629003375 salt bridge; other site 383629003376 non-specific DNA binding site [nucleotide binding]; other site 383629003377 sequence-specific DNA binding site [nucleotide binding]; other site 383629003378 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 383629003379 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 383629003380 Walker A motif; other site 383629003381 ATP binding site [chemical binding]; other site 383629003382 Walker B motif; other site 383629003383 arginine finger; other site 383629003384 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 383629003385 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 383629003386 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 383629003387 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 383629003388 DNA-binding site [nucleotide binding]; DNA binding site 383629003389 RNA-binding motif; other site 383629003390 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 383629003391 putative catalytic site [active] 383629003392 putative phosphate binding site [ion binding]; other site 383629003393 active site 383629003394 metal binding site A [ion binding]; metal-binding site 383629003395 DNA binding site [nucleotide binding] 383629003396 putative AP binding site [nucleotide binding]; other site 383629003397 putative metal binding site B [ion binding]; other site 383629003398 Predicted membrane protein [Function unknown]; Region: COG2323 383629003399 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 383629003400 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 383629003401 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 383629003402 Zn2+ binding site [ion binding]; other site 383629003403 Mg2+ binding site [ion binding]; other site 383629003404 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 383629003405 YCII-related domain; Region: YCII; cl00999 383629003406 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 383629003407 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 383629003408 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 383629003409 active site 383629003410 HIGH motif; other site 383629003411 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629003412 KMSK motif region; other site 383629003413 tRNA binding surface [nucleotide binding]; other site 383629003414 DALR anticodon binding domain; Region: DALR_1; smart00836 383629003415 anticodon binding site; other site 383629003416 Sporulation related domain; Region: SPOR; pfam05036 383629003417 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 383629003418 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 383629003419 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 383629003420 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 383629003421 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 383629003422 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 383629003423 trimer interface [polypeptide binding]; other site 383629003424 active site 383629003425 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 383629003426 trimer interface [polypeptide binding]; other site 383629003427 active site 383629003428 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 383629003429 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 383629003430 DNA binding residues [nucleotide binding] 383629003431 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 383629003432 IHF dimer interface [polypeptide binding]; other site 383629003433 IHF - DNA interface [nucleotide binding]; other site 383629003434 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 383629003435 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 383629003436 dimer interface [polypeptide binding]; other site 383629003437 active site 383629003438 CoA binding pocket [chemical binding]; other site 383629003439 putative phosphate acyltransferase; Provisional; Region: PRK05331 383629003440 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 383629003441 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 383629003442 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 383629003443 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 383629003444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 383629003445 ABC transporter ATPase component; Reviewed; Region: PRK11147 383629003446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629003447 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629003448 maltose O-acetyltransferase; Provisional; Region: PRK10092 383629003449 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 383629003450 active site 383629003451 substrate binding site [chemical binding]; other site 383629003452 trimer interface [polypeptide binding]; other site 383629003453 CoA binding site [chemical binding]; other site 383629003454 Uncharacterized conserved protein [Function unknown]; Region: COG3791 383629003455 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 383629003456 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 383629003457 NAD binding site [chemical binding]; other site 383629003458 homodimer interface [polypeptide binding]; other site 383629003459 homotetramer interface [polypeptide binding]; other site 383629003460 active site 383629003461 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 383629003462 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 383629003463 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 383629003464 active site 383629003465 HIGH motif; other site 383629003466 dimer interface [polypeptide binding]; other site 383629003467 KMSKS motif; other site 383629003468 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 383629003469 RNA binding surface [nucleotide binding]; other site 383629003470 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 383629003471 Uncharacterized conserved protein [Function unknown]; Region: COG0397 383629003472 hypothetical protein; Validated; Region: PRK00029 383629003473 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629003474 EamA-like transporter family; Region: EamA; pfam00892 383629003475 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 383629003476 putative catalytic site [active] 383629003477 putative metal binding site [ion binding]; other site 383629003478 putative phosphate binding site [ion binding]; other site 383629003479 helicase 45; Provisional; Region: PTZ00424 383629003480 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 383629003481 ATP binding site [chemical binding]; other site 383629003482 Mg++ binding site [ion binding]; other site 383629003483 motif III; other site 383629003484 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 383629003485 nucleotide binding region [chemical binding]; other site 383629003486 ATP-binding site [chemical binding]; other site 383629003487 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 383629003488 metal binding site 2 [ion binding]; metal-binding site 383629003489 putative DNA binding helix; other site 383629003490 metal binding site 1 [ion binding]; metal-binding site 383629003491 dimer interface [polypeptide binding]; other site 383629003492 structural Zn2+ binding site [ion binding]; other site 383629003493 enolase; Provisional; Region: eno; PRK00077 383629003494 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 383629003495 dimer interface [polypeptide binding]; other site 383629003496 metal binding site [ion binding]; metal-binding site 383629003497 substrate binding pocket [chemical binding]; other site 383629003498 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 383629003499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629003500 Coenzyme A binding pocket [chemical binding]; other site 383629003501 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 383629003502 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 383629003503 active site 383629003504 tetramer interface [polypeptide binding]; other site 383629003505 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 383629003506 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 383629003507 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629003508 catalytic residue [active] 383629003509 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 383629003510 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629003511 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 383629003512 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 383629003513 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629003514 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 383629003515 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 383629003516 catalytic triad [active] 383629003517 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 383629003518 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629003519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629003520 dimer interface [polypeptide binding]; other site 383629003521 conserved gate region; other site 383629003522 putative PBP binding loops; other site 383629003523 ABC-ATPase subunit interface; other site 383629003524 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 383629003525 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629003526 ABC-ATPase subunit interface; other site 383629003527 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 383629003528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629003529 substrate binding pocket [chemical binding]; other site 383629003530 membrane-bound complex binding site; other site 383629003531 hinge residues; other site 383629003532 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 383629003533 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 383629003534 Walker A/P-loop; other site 383629003535 ATP binding site [chemical binding]; other site 383629003536 Q-loop/lid; other site 383629003537 ABC transporter signature motif; other site 383629003538 Walker B; other site 383629003539 D-loop; other site 383629003540 H-loop/switch region; other site 383629003541 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 383629003542 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 383629003543 putative metal binding site [ion binding]; other site 383629003544 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 383629003545 putative metal binding site [ion binding]; other site 383629003546 Uncharacterized conserved protein [Function unknown]; Region: COG5470 383629003547 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 383629003548 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629003549 active site 383629003550 HIGH motif; other site 383629003551 nucleotide binding site [chemical binding]; other site 383629003552 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 383629003553 active site 383629003554 KMSKS motif; other site 383629003555 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 383629003556 tRNA binding surface [nucleotide binding]; other site 383629003557 anticodon binding site; other site 383629003558 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 383629003559 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 383629003560 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 383629003561 putative DNA binding site [nucleotide binding]; other site 383629003562 putative Zn2+ binding site [ion binding]; other site 383629003563 AsnC family; Region: AsnC_trans_reg; pfam01037 383629003564 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 383629003565 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 383629003566 dimer interface [polypeptide binding]; other site 383629003567 active site 383629003568 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629003569 catalytic residues [active] 383629003570 substrate binding site [chemical binding]; other site 383629003571 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 383629003572 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 383629003573 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 383629003574 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 383629003575 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 383629003576 CoenzymeA binding site [chemical binding]; other site 383629003577 subunit interaction site [polypeptide binding]; other site 383629003578 PHB binding site; other site 383629003579 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 383629003580 FAD binding site [chemical binding]; other site 383629003581 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 383629003582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629003583 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 383629003584 putative dimerization interface [polypeptide binding]; other site 383629003585 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 383629003586 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 383629003587 active site 383629003588 dimerization interface [polypeptide binding]; other site 383629003589 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 383629003590 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 383629003591 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 383629003592 Proline dehydrogenase; Region: Pro_dh; pfam01619 383629003593 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 383629003594 Glutamate binding site [chemical binding]; other site 383629003595 NAD binding site [chemical binding]; other site 383629003596 catalytic residues [active] 383629003597 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629003598 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 383629003599 dimerization interface [polypeptide binding]; other site 383629003600 putative DNA binding site [nucleotide binding]; other site 383629003601 putative Zn2+ binding site [ion binding]; other site 383629003602 AsnC family; Region: AsnC_trans_reg; pfam01037 383629003603 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629003604 binding surface 383629003605 TPR motif; other site 383629003606 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 383629003607 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 383629003608 catalytic residues [active] 383629003609 Recombinase; Region: Recombinase; pfam07508 383629003610 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 383629003611 RES domain; Region: RES; pfam08808 383629003612 Cytochrome B561, N terminal; Region: CytochromB561_N; pfam09786 383629003613 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 383629003614 AAA domain; Region: AAA_12; pfam13087 383629003615 Antirestriction protein (ArdA); Region: ArdA; cl01953 383629003616 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 383629003617 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 383629003618 catalytic residues [active] 383629003619 catalytic nucleophile [active] 383629003620 Presynaptic Site I dimer interface [polypeptide binding]; other site 383629003621 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 383629003622 Synaptic Flat tetramer interface [polypeptide binding]; other site 383629003623 Synaptic Site I dimer interface [polypeptide binding]; other site 383629003624 DNA binding site [nucleotide binding] 383629003625 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 383629003626 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 383629003627 Walker B motif; other site 383629003628 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 383629003629 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629003630 CHASE domain; Region: CHASE; cl01369 383629003631 PAS fold; Region: PAS_3; pfam08447 383629003632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629003633 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 383629003634 dimer interface [polypeptide binding]; other site 383629003635 phosphorylation site [posttranslational modification] 383629003636 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 383629003637 ATP binding site [chemical binding]; other site 383629003638 Mg2+ binding site [ion binding]; other site 383629003639 G-X-G motif; other site 383629003640 Response regulator receiver domain; Region: Response_reg; pfam00072 383629003641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629003642 active site 383629003643 phosphorylation site [posttranslational modification] 383629003644 intermolecular recognition site; other site 383629003645 dimerization interface [polypeptide binding]; other site 383629003646 PAS domain; Region: PAS_9; pfam13426 383629003647 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 383629003648 putative active site [active] 383629003649 heme pocket [chemical binding]; other site 383629003650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629003651 dimer interface [polypeptide binding]; other site 383629003652 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 383629003653 putative CheW interface [polypeptide binding]; other site 383629003654 acyl-CoA esterase; Provisional; Region: PRK10673 383629003655 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 383629003656 S-formylglutathione hydrolase; Region: PLN02442 383629003657 WHG domain; Region: WHG; pfam13305 383629003658 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 383629003659 yiaA/B two helix domain; Region: YiaAB; cl01759 383629003660 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 383629003661 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 383629003662 dimer interface [polypeptide binding]; other site 383629003663 active site 383629003664 glycine-pyridoxal phosphate binding site [chemical binding]; other site 383629003665 folate binding site [chemical binding]; other site 383629003666 ATP-NAD kinase; Region: NAD_kinase; pfam01513 383629003667 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 383629003668 amidase; Provisional; Region: PRK07487 383629003669 Amidase; Region: Amidase; cl11426 383629003670 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 383629003671 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 383629003672 acyl-activating enzyme (AAE) consensus motif; other site 383629003673 putative AMP binding site [chemical binding]; other site 383629003674 putative active site [active] 383629003675 putative CoA binding site [chemical binding]; other site 383629003676 malic enzyme; Reviewed; Region: PRK12862 383629003677 Malic enzyme, N-terminal domain; Region: malic; pfam00390 383629003678 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 383629003679 putative NAD(P) binding site [chemical binding]; other site 383629003680 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 383629003681 Cupin domain; Region: Cupin_2; cl17218 383629003682 Cupin; Region: Cupin_6; pfam12852 383629003683 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 383629003684 active site 383629003685 catalytic motif [active] 383629003686 Zn binding site [ion binding]; other site 383629003687 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 383629003688 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 383629003689 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 383629003690 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 383629003691 phosphopentomutase; Provisional; Region: PRK05362 383629003692 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 383629003693 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629003694 active site 383629003695 Sporulation related domain; Region: SPOR; pfam05036 383629003696 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 383629003697 acyl-CoA synthetase; Validated; Region: PRK08162 383629003698 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 383629003699 acyl-activating enzyme (AAE) consensus motif; other site 383629003700 putative active site [active] 383629003701 AMP binding site [chemical binding]; other site 383629003702 putative CoA binding site [chemical binding]; other site 383629003703 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 383629003704 Hint domain; Region: Hint_2; pfam13403 383629003705 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 383629003706 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 383629003707 substrate binding site [chemical binding]; other site 383629003708 oxyanion hole (OAH) forming residues; other site 383629003709 trimer interface [polypeptide binding]; other site 383629003710 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 383629003711 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 383629003712 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 383629003713 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 383629003714 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 383629003715 dimer interface [polypeptide binding]; other site 383629003716 active site 383629003717 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629003718 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 383629003719 putative C-terminal domain interface [polypeptide binding]; other site 383629003720 putative GSH binding site (G-site) [chemical binding]; other site 383629003721 putative dimer interface [polypeptide binding]; other site 383629003722 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 383629003723 N-terminal domain interface [polypeptide binding]; other site 383629003724 dimer interface [polypeptide binding]; other site 383629003725 substrate binding pocket (H-site) [chemical binding]; other site 383629003726 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629003727 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629003728 active site 383629003729 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 383629003730 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 383629003731 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 383629003732 FAD binding site [chemical binding]; other site 383629003733 substrate binding site [chemical binding]; other site 383629003734 catalytic residues [active] 383629003735 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 383629003736 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 383629003737 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 383629003738 DNA binding residues [nucleotide binding] 383629003739 putative dimer interface [polypeptide binding]; other site 383629003740 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 383629003741 DNA binding residues [nucleotide binding] 383629003742 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 383629003743 putative dimer interface [polypeptide binding]; other site 383629003744 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 383629003745 CoenzymeA binding site [chemical binding]; other site 383629003746 subunit interaction site [polypeptide binding]; other site 383629003747 PHB binding site; other site 383629003748 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 383629003749 CoenzymeA binding site [chemical binding]; other site 383629003750 subunit interaction site [polypeptide binding]; other site 383629003751 PHB binding site; other site 383629003752 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 383629003753 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 383629003754 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 383629003755 ArsC family; Region: ArsC; pfam03960 383629003756 catalytic residues [active] 383629003757 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 383629003758 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 383629003759 quinone interaction residues [chemical binding]; other site 383629003760 active site 383629003761 catalytic residues [active] 383629003762 FMN binding site [chemical binding]; other site 383629003763 substrate binding site [chemical binding]; other site 383629003764 Protein of unknown function (DUF952); Region: DUF952; pfam06108 383629003765 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 383629003766 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 383629003767 active site 383629003768 metal binding site [ion binding]; metal-binding site 383629003769 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 383629003770 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 383629003771 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 383629003772 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 383629003773 active site residue [active] 383629003774 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 383629003775 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 383629003776 selenophosphate synthetase; Provisional; Region: PRK00943 383629003777 dimerization interface [polypeptide binding]; other site 383629003778 putative ATP binding site [chemical binding]; other site 383629003779 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 383629003780 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 383629003781 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 383629003782 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 383629003783 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 383629003784 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 383629003785 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 383629003786 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 383629003787 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 383629003788 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 383629003789 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 383629003790 active site residue [active] 383629003791 Serine hydrolase (FSH1); Region: FSH1; pfam03959 383629003792 glucosyltransferase MdoH; Provisional; Region: PRK05454 383629003793 active site 383629003794 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 383629003795 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 383629003796 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 383629003797 OpgC protein; Region: OpgC_C; pfam10129 383629003798 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 383629003799 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 383629003800 CoA-transferase family III; Region: CoA_transf_3; pfam02515 383629003801 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 383629003802 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 383629003803 PYR/PP interface [polypeptide binding]; other site 383629003804 dimer interface [polypeptide binding]; other site 383629003805 TPP binding site [chemical binding]; other site 383629003806 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 383629003807 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 383629003808 TPP-binding site [chemical binding]; other site 383629003809 Domain of unknown function DUF302; Region: DUF302; pfam03625 383629003810 putative inner membrane protein; Provisional; Region: PRK11099 383629003811 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 383629003812 dimerization interface [polypeptide binding]; other site 383629003813 putative DNA binding site [nucleotide binding]; other site 383629003814 putative Zn2+ binding site [ion binding]; other site 383629003815 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 383629003816 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 383629003817 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 383629003818 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 383629003819 catalytic residues [active] 383629003820 Cytochrome c; Region: Cytochrom_C; pfam00034 383629003821 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 383629003822 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 383629003823 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 383629003824 Cytochrome c [Energy production and conversion]; Region: COG3258 383629003825 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 383629003826 active site 383629003827 metal binding site [ion binding]; metal-binding site 383629003828 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 383629003829 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 383629003830 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 383629003831 Moco binding site; other site 383629003832 metal coordination site [ion binding]; other site 383629003833 Cytochrome c; Region: Cytochrom_C; pfam00034 383629003834 Cytochrome c2 [Energy production and conversion]; Region: COG3474 383629003835 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 383629003836 nucleotide binding site [chemical binding]; other site 383629003837 putative NEF/HSP70 interaction site [polypeptide binding]; other site 383629003838 SBD interface [polypeptide binding]; other site 383629003839 Transglycosylase SLT domain; Region: SLT_2; pfam13406 383629003840 murein hydrolase B; Provisional; Region: PRK10760; cl17906 383629003841 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629003842 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 383629003843 conserved cys residue [active] 383629003844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629003845 Clp protease; Region: CLP_protease; pfam00574 383629003846 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 383629003847 oligomer interface [polypeptide binding]; other site 383629003848 active site residues [active] 383629003849 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 383629003850 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 383629003851 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 383629003852 Walker A motif; other site 383629003853 ATP binding site [chemical binding]; other site 383629003854 Walker B motif; other site 383629003855 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 383629003856 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 383629003857 homotrimer interaction site [polypeptide binding]; other site 383629003858 putative active site [active] 383629003859 NADH dehydrogenase; Validated; Region: PRK08183 383629003860 mce related protein; Region: MCE; pfam02470 383629003861 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 383629003862 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 383629003863 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 383629003864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 383629003865 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 383629003866 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 383629003867 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 383629003868 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 383629003869 carboxyltransferase (CT) interaction site; other site 383629003870 biotinylation site [posttranslational modification]; other site 383629003871 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 383629003872 PAS domain; Region: PAS_9; pfam13426 383629003873 putative active site [active] 383629003874 heme pocket [chemical binding]; other site 383629003875 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 383629003876 DNA binding residues [nucleotide binding] 383629003877 dimerization interface [polypeptide binding]; other site 383629003878 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629003879 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629003880 Walker A/P-loop; other site 383629003881 ATP binding site [chemical binding]; other site 383629003882 Q-loop/lid; other site 383629003883 ABC transporter signature motif; other site 383629003884 Walker B; other site 383629003885 D-loop; other site 383629003886 H-loop/switch region; other site 383629003887 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629003888 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629003889 Walker A/P-loop; other site 383629003890 ATP binding site [chemical binding]; other site 383629003891 Q-loop/lid; other site 383629003892 ABC transporter signature motif; other site 383629003893 Walker B; other site 383629003894 D-loop; other site 383629003895 H-loop/switch region; other site 383629003896 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629003897 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 383629003898 TM-ABC transporter signature motif; other site 383629003899 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 383629003900 TM-ABC transporter signature motif; other site 383629003901 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629003902 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 383629003903 putative ligand binding site [chemical binding]; other site 383629003904 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629003905 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 383629003906 non-specific DNA binding site [nucleotide binding]; other site 383629003907 salt bridge; other site 383629003908 sequence-specific DNA binding site [nucleotide binding]; other site 383629003909 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 383629003910 Response regulator receiver domain; Region: Response_reg; pfam00072 383629003911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629003912 active site 383629003913 phosphorylation site [posttranslational modification] 383629003914 intermolecular recognition site; other site 383629003915 dimerization interface [polypeptide binding]; other site 383629003916 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 383629003917 Na binding site [ion binding]; other site 383629003918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629003919 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 383629003920 dimer interface [polypeptide binding]; other site 383629003921 phosphorylation site [posttranslational modification] 383629003922 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 383629003923 ATP binding site [chemical binding]; other site 383629003924 Mg2+ binding site [ion binding]; other site 383629003925 G-X-G motif; other site 383629003926 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 383629003927 Putative phosphatase (DUF442); Region: DUF442; cl17385 383629003928 Predicted transporter component [General function prediction only]; Region: COG2391 383629003929 Sulphur transport; Region: Sulf_transp; pfam04143 383629003930 Predicted transporter component [General function prediction only]; Region: COG2391 383629003931 Sulphur transport; Region: Sulf_transp; pfam04143 383629003932 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 383629003933 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 383629003934 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 383629003935 homotrimer interaction site [polypeptide binding]; other site 383629003936 putative active site [active] 383629003937 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 383629003938 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629003939 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629003940 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 383629003941 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 383629003942 homodimer interface [polypeptide binding]; other site 383629003943 active site 383629003944 FMN binding site [chemical binding]; other site 383629003945 substrate binding site [chemical binding]; other site 383629003946 4Fe-4S binding domain; Region: Fer4; cl02805 383629003947 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 383629003948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629003949 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 383629003950 allantoate amidohydrolase; Reviewed; Region: PRK12893 383629003951 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 383629003952 active site 383629003953 metal binding site [ion binding]; metal-binding site 383629003954 dimer interface [polypeptide binding]; other site 383629003955 phenylhydantoinase; Validated; Region: PRK08323 383629003956 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 383629003957 tetramer interface [polypeptide binding]; other site 383629003958 active site 383629003959 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 383629003960 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 383629003961 Walker A/P-loop; other site 383629003962 ATP binding site [chemical binding]; other site 383629003963 Q-loop/lid; other site 383629003964 ABC transporter signature motif; other site 383629003965 Walker B; other site 383629003966 D-loop; other site 383629003967 H-loop/switch region; other site 383629003968 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 383629003969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629003970 dimer interface [polypeptide binding]; other site 383629003971 conserved gate region; other site 383629003972 putative PBP binding loops; other site 383629003973 ABC-ATPase subunit interface; other site 383629003974 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 383629003975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629003976 NMT1/THI5 like; Region: NMT1; pfam09084 383629003977 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 383629003978 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 383629003979 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 383629003980 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 383629003981 adenylate kinase; Reviewed; Region: adk; PRK00279 383629003982 AMP-binding site [chemical binding]; other site 383629003983 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 383629003984 acetyl-CoA synthetase; Provisional; Region: PRK00174 383629003985 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 383629003986 active site 383629003987 CoA binding site [chemical binding]; other site 383629003988 acyl-activating enzyme (AAE) consensus motif; other site 383629003989 AMP binding site [chemical binding]; other site 383629003990 acetate binding site [chemical binding]; other site 383629003991 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629003992 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 383629003993 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 383629003994 DctM-like transporters; Region: DctM; pfam06808 383629003995 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 383629003996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 383629003997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629003998 active site 383629003999 phosphorylation site [posttranslational modification] 383629004000 intermolecular recognition site; other site 383629004001 dimerization interface [polypeptide binding]; other site 383629004002 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 383629004003 DNA binding site [nucleotide binding] 383629004004 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 383629004005 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 383629004006 ATP binding site [chemical binding]; other site 383629004007 Mg2+ binding site [ion binding]; other site 383629004008 G-X-G motif; other site 383629004009 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 383629004010 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629004011 putative substrate translocation pore; other site 383629004012 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 383629004013 HAMP domain; Region: HAMP; pfam00672 383629004014 dimerization interface [polypeptide binding]; other site 383629004015 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 383629004016 dimer interface [polypeptide binding]; other site 383629004017 phosphorylation site [posttranslational modification] 383629004018 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 383629004019 ATP binding site [chemical binding]; other site 383629004020 Mg2+ binding site [ion binding]; other site 383629004021 G-X-G motif; other site 383629004022 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629004023 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629004024 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 383629004025 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 383629004026 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629004027 DNA-binding site [nucleotide binding]; DNA binding site 383629004028 UTRA domain; Region: UTRA; pfam07702 383629004029 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 383629004030 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 383629004031 active site 383629004032 dimer interface [polypeptide binding]; other site 383629004033 non-prolyl cis peptide bond; other site 383629004034 insertion regions; other site 383629004035 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 383629004036 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 383629004037 active site 383629004038 catalytic tetrad [active] 383629004039 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 383629004040 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 383629004041 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629004042 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629004043 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 383629004044 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629004045 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 383629004046 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 383629004047 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 383629004048 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 383629004049 short chain dehydrogenase; Provisional; Region: PRK06500 383629004050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629004051 NAD(P) binding site [chemical binding]; other site 383629004052 active site 383629004053 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 383629004054 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629004055 Walker A/P-loop; other site 383629004056 ATP binding site [chemical binding]; other site 383629004057 Q-loop/lid; other site 383629004058 ABC transporter signature motif; other site 383629004059 Walker B; other site 383629004060 D-loop; other site 383629004061 H-loop/switch region; other site 383629004062 TOBE domain; Region: TOBE_2; pfam08402 383629004063 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629004064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629004065 dimer interface [polypeptide binding]; other site 383629004066 conserved gate region; other site 383629004067 putative PBP binding loops; other site 383629004068 ABC-ATPase subunit interface; other site 383629004069 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 383629004070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629004071 dimer interface [polypeptide binding]; other site 383629004072 conserved gate region; other site 383629004073 putative PBP binding loops; other site 383629004074 ABC-ATPase subunit interface; other site 383629004075 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629004076 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629004077 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629004078 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629004079 DNA binding site [nucleotide binding] 383629004080 domain linker motif; other site 383629004081 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 383629004082 dimerization interface [polypeptide binding]; other site 383629004083 ligand binding site [chemical binding]; other site 383629004084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629004085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629004086 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629004087 putative effector binding pocket; other site 383629004088 dimerization interface [polypeptide binding]; other site 383629004089 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 383629004090 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 383629004091 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 383629004092 dimerization interface [polypeptide binding]; other site 383629004093 putative ATP binding site [chemical binding]; other site 383629004094 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 383629004095 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 383629004096 active site 383629004097 substrate binding site [chemical binding]; other site 383629004098 cosubstrate binding site; other site 383629004099 catalytic site [active] 383629004100 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 383629004101 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 383629004102 catalytic site [active] 383629004103 putative active site [active] 383629004104 putative substrate binding site [chemical binding]; other site 383629004105 HRDC domain; Region: HRDC; pfam00570 383629004106 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 383629004107 Predicted transcriptional regulator [Transcription]; Region: COG2378 383629004108 HTH domain; Region: HTH_11; pfam08279 383629004109 WYL domain; Region: WYL; pfam13280 383629004110 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629004111 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 383629004112 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 383629004113 dimer interface [polypeptide binding]; other site 383629004114 N-terminal domain interface [polypeptide binding]; other site 383629004115 putative substrate binding pocket (H-site) [chemical binding]; other site 383629004116 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 383629004117 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 383629004118 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 383629004119 B12 binding site [chemical binding]; other site 383629004120 cobalt ligand [ion binding]; other site 383629004121 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 383629004122 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 383629004123 FeS/SAM binding site; other site 383629004124 methionine synthase I; Validated; Region: PRK07534 383629004125 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 383629004126 Predicted integral membrane protein [Function unknown]; Region: COG0392 383629004127 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 383629004128 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 383629004129 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 383629004130 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 383629004131 ATP binding site [chemical binding]; other site 383629004132 active site 383629004133 substrate binding site [chemical binding]; other site 383629004134 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 383629004135 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 383629004136 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 383629004137 putative active site [active] 383629004138 catalytic triad [active] 383629004139 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 383629004140 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 383629004141 dimer interface [polypeptide binding]; other site 383629004142 phosphorylation site [posttranslational modification] 383629004143 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 383629004144 ATP binding site [chemical binding]; other site 383629004145 Mg2+ binding site [ion binding]; other site 383629004146 G-X-G motif; other site 383629004147 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 383629004148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629004149 active site 383629004150 phosphorylation site [posttranslational modification] 383629004151 intermolecular recognition site; other site 383629004152 dimerization interface [polypeptide binding]; other site 383629004153 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 383629004154 Walker A motif; other site 383629004155 ATP binding site [chemical binding]; other site 383629004156 Walker B motif; other site 383629004157 arginine finger; other site 383629004158 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 383629004159 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 383629004160 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 383629004161 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 383629004162 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 383629004163 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 383629004164 Cytochrome P450; Region: p450; cl12078 383629004165 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 383629004166 fumarate hydratase; Reviewed; Region: fumC; PRK00485 383629004167 Class II fumarases; Region: Fumarase_classII; cd01362 383629004168 active site 383629004169 tetramer interface [polypeptide binding]; other site 383629004170 Stringent starvation protein B; Region: SspB; pfam04386 383629004171 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 383629004172 Chromate transporter; Region: Chromate_transp; pfam02417 383629004173 SnoaL-like domain; Region: SnoaL_2; pfam12680 383629004174 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 383629004175 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629004176 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 383629004177 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 383629004178 Walker A/P-loop; other site 383629004179 ATP binding site [chemical binding]; other site 383629004180 Q-loop/lid; other site 383629004181 ABC transporter signature motif; other site 383629004182 Walker B; other site 383629004183 D-loop; other site 383629004184 H-loop/switch region; other site 383629004185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 383629004186 FtsX-like permease family; Region: FtsX; pfam02687 383629004187 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 383629004188 FtsX-like permease family; Region: FtsX; pfam02687 383629004189 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; Region: ACP_syn_III_C; cl17241 383629004190 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 383629004191 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 383629004192 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 383629004193 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 383629004194 active site 383629004195 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 383629004196 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 383629004197 dimer interface [polypeptide binding]; other site 383629004198 active site 383629004199 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629004200 catalytic residues [active] 383629004201 substrate binding site [chemical binding]; other site 383629004202 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629004203 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629004204 active site 383629004205 hypothetical protein; Validated; Region: PRK06840 383629004206 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 383629004207 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629004208 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 383629004209 acyl-activating enzyme (AAE) consensus motif; other site 383629004210 acyl-activating enzyme (AAE) consensus motif; other site 383629004211 putative AMP binding site [chemical binding]; other site 383629004212 putative active site [active] 383629004213 putative CoA binding site [chemical binding]; other site 383629004214 Phosphopantetheine attachment site; Region: PP-binding; cl09936 383629004215 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 383629004216 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 383629004217 acyl-activating enzyme (AAE) consensus motif; other site 383629004218 AMP binding site [chemical binding]; other site 383629004219 Cytochrome P450; Region: p450; cl12078 383629004220 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 383629004221 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 383629004222 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629004223 acyl-activating enzyme (AAE) consensus motif; other site 383629004224 AMP binding site [chemical binding]; other site 383629004225 active site 383629004226 CoA binding site [chemical binding]; other site 383629004227 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 383629004228 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 383629004229 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 383629004230 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629004231 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629004232 active site 383629004233 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 383629004234 Helix-turn-helix domain; Region: HTH_18; pfam12833 383629004235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629004236 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 383629004237 Transcriptional regulators [Transcription]; Region: FadR; COG2186 383629004238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629004239 DNA-binding site [nucleotide binding]; DNA binding site 383629004240 FCD domain; Region: FCD; pfam07729 383629004241 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 383629004242 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 383629004243 NADP binding site [chemical binding]; other site 383629004244 dimer interface [polypeptide binding]; other site 383629004245 BCCT family transporter; Region: BCCT; pfam02028 383629004246 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 383629004247 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629004248 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 383629004249 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 383629004250 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629004251 catalytic residue [active] 383629004252 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 383629004253 DNA photolyase; Region: DNA_photolyase; pfam00875 383629004254 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 383629004255 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 383629004256 S-adenosylmethionine binding site [chemical binding]; other site 383629004257 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 383629004258 putative active site pocket [active] 383629004259 dimerization interface [polypeptide binding]; other site 383629004260 putative catalytic residue [active] 383629004261 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 383629004262 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 383629004263 dimer interface [polypeptide binding]; other site 383629004264 active site 383629004265 ADP-ribose binding site [chemical binding]; other site 383629004266 nudix motif; other site 383629004267 metal binding site [ion binding]; metal-binding site 383629004268 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 383629004269 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 383629004270 dimer interface [polypeptide binding]; other site 383629004271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629004272 catalytic residue [active] 383629004273 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 383629004274 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 383629004275 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629004276 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 383629004277 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 383629004278 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629004279 DNA binding site [nucleotide binding] 383629004280 domain linker motif; other site 383629004281 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 383629004282 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 383629004283 putative ligand binding site [chemical binding]; other site 383629004284 xylose isomerase; Provisional; Region: PRK05474 383629004285 xylose isomerase; Region: xylose_isom_A; TIGR02630 383629004286 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 383629004287 N- and C-terminal domain interface [polypeptide binding]; other site 383629004288 D-xylulose kinase; Region: XylB; TIGR01312 383629004289 active site 383629004290 MgATP binding site [chemical binding]; other site 383629004291 catalytic site [active] 383629004292 metal binding site [ion binding]; metal-binding site 383629004293 xylulose binding site [chemical binding]; other site 383629004294 homodimer interface [polypeptide binding]; other site 383629004295 Hint domain; Region: Hint_2; pfam13403 383629004296 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 383629004297 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 383629004298 Ligand binding site; other site 383629004299 metal-binding site 383629004300 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629004301 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629004302 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629004303 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629004304 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 383629004305 Domain of unknown function DUF21; Region: DUF21; pfam01595 383629004306 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 383629004307 Transporter associated domain; Region: CorC_HlyC; smart01091 383629004308 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 383629004309 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 383629004310 active site 383629004311 DNA binding site [nucleotide binding] 383629004312 Int/Topo IB signature motif; other site 383629004313 shikimate kinase; Provisional; Region: PRK13946 383629004314 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 383629004315 ADP binding site [chemical binding]; other site 383629004316 magnesium binding site [ion binding]; other site 383629004317 putative shikimate binding site; other site 383629004318 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 383629004319 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 383629004320 active site 383629004321 dimer interface [polypeptide binding]; other site 383629004322 metal binding site [ion binding]; metal-binding site 383629004323 Nitrate and nitrite sensing; Region: NIT; pfam08376 383629004324 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629004325 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629004326 dimer interface [polypeptide binding]; other site 383629004327 putative CheW interface [polypeptide binding]; other site 383629004328 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 383629004329 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 383629004330 dimer interface [polypeptide binding]; other site 383629004331 ssDNA binding site [nucleotide binding]; other site 383629004332 tetramer (dimer of dimers) interface [polypeptide binding]; other site 383629004333 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 383629004334 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 383629004335 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629004336 catalytic residue [active] 383629004337 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 383629004338 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629004339 Walker A/P-loop; other site 383629004340 ATP binding site [chemical binding]; other site 383629004341 Q-loop/lid; other site 383629004342 ABC transporter signature motif; other site 383629004343 Walker B; other site 383629004344 D-loop; other site 383629004345 H-loop/switch region; other site 383629004346 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629004347 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629004348 Walker A/P-loop; other site 383629004349 ATP binding site [chemical binding]; other site 383629004350 Q-loop/lid; other site 383629004351 ABC transporter signature motif; other site 383629004352 Walker B; other site 383629004353 D-loop; other site 383629004354 H-loop/switch region; other site 383629004355 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629004356 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 383629004357 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629004358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629004359 dimer interface [polypeptide binding]; other site 383629004360 conserved gate region; other site 383629004361 putative PBP binding loops; other site 383629004362 ABC-ATPase subunit interface; other site 383629004363 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 383629004364 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 383629004365 Helix-turn-helix domain; Region: HTH_18; pfam12833 383629004366 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629004367 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 383629004368 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 383629004369 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 383629004370 putative nucleotide binding site [chemical binding]; other site 383629004371 uridine monophosphate binding site [chemical binding]; other site 383629004372 homohexameric interface [polypeptide binding]; other site 383629004373 ribosome recycling factor; Reviewed; Region: frr; PRK00083 383629004374 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 383629004375 hinge region; other site 383629004376 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 383629004377 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 383629004378 catalytic residue [active] 383629004379 putative FPP diphosphate binding site; other site 383629004380 putative FPP binding hydrophobic cleft; other site 383629004381 dimer interface [polypeptide binding]; other site 383629004382 putative IPP diphosphate binding site; other site 383629004383 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 383629004384 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 383629004385 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 383629004386 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 383629004387 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 383629004388 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 383629004389 RIP metalloprotease RseP; Region: TIGR00054 383629004390 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 383629004391 active site 383629004392 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 383629004393 protein binding site [polypeptide binding]; other site 383629004394 putative substrate binding region [chemical binding]; other site 383629004395 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 383629004396 protein binding site [polypeptide binding]; other site 383629004397 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 383629004398 putative substrate binding region [chemical binding]; other site 383629004399 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 383629004400 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 383629004401 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 383629004402 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 383629004403 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 383629004404 Surface antigen; Region: Bac_surface_Ag; pfam01103 383629004405 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 383629004406 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 383629004407 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 383629004408 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 383629004409 active site 383629004410 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 383629004411 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 383629004412 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 383629004413 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 383629004414 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 383629004415 Ligand Binding Site [chemical binding]; other site 383629004416 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 383629004417 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 383629004418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629004419 active site 383629004420 phosphorylation site [posttranslational modification] 383629004421 intermolecular recognition site; other site 383629004422 dimerization interface [polypeptide binding]; other site 383629004423 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 383629004424 DNA binding site [nucleotide binding] 383629004425 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 383629004426 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 383629004427 nucleotide binding pocket [chemical binding]; other site 383629004428 K-X-D-G motif; other site 383629004429 catalytic site [active] 383629004430 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 383629004431 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 383629004432 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 383629004433 Dimer interface [polypeptide binding]; other site 383629004434 BRCT sequence motif; other site 383629004435 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 383629004436 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 383629004437 generic binding surface II; other site 383629004438 ssDNA binding site; other site 383629004439 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 383629004440 ATP binding site [chemical binding]; other site 383629004441 putative Mg++ binding site [ion binding]; other site 383629004442 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 383629004443 nucleotide binding region [chemical binding]; other site 383629004444 ATP-binding site [chemical binding]; other site 383629004445 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 383629004446 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 383629004447 trimerization site [polypeptide binding]; other site 383629004448 active site 383629004449 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 383629004450 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 383629004451 active site 383629004452 HIGH motif; other site 383629004453 nucleotide binding site [chemical binding]; other site 383629004454 active site 383629004455 KMSKS motif; other site 383629004456 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 383629004457 S-adenosylmethionine binding site [chemical binding]; other site 383629004458 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 383629004459 Glucose inhibited division protein A; Region: GIDA; pfam01134 383629004460 enoyl-CoA hydratase; Validated; Region: PRK08139 383629004461 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 383629004462 substrate binding site [chemical binding]; other site 383629004463 oxyanion hole (OAH) forming residues; other site 383629004464 trimer interface [polypeptide binding]; other site 383629004465 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 383629004466 CoenzymeA binding site [chemical binding]; other site 383629004467 subunit interaction site [polypeptide binding]; other site 383629004468 PHB binding site; other site 383629004469 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 383629004470 spermidine synthase; Provisional; Region: PRK00811 383629004471 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 383629004472 S-adenosylmethionine binding site [chemical binding]; other site 383629004473 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 383629004474 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 383629004475 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 383629004476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629004477 DNA-binding site [nucleotide binding]; DNA binding site 383629004478 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 383629004479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629004480 homodimer interface [polypeptide binding]; other site 383629004481 catalytic residue [active] 383629004482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629004483 NAD(P) binding site [chemical binding]; other site 383629004484 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 383629004485 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 383629004486 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 383629004487 23S rRNA interface [nucleotide binding]; other site 383629004488 L3 interface [polypeptide binding]; other site 383629004489 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 383629004490 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 383629004491 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 383629004492 Homoserine O-succinyltransferase; Region: HTS; pfam04204 383629004493 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 383629004494 proposed active site lysine [active] 383629004495 conserved cys residue [active] 383629004496 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 383629004497 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629004498 EamA-like transporter family; Region: EamA; cl17759 383629004499 GMP synthase; Reviewed; Region: guaA; PRK00074 383629004500 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 383629004501 AMP/PPi binding site [chemical binding]; other site 383629004502 candidate oxyanion hole; other site 383629004503 catalytic triad [active] 383629004504 potential glutamine specificity residues [chemical binding]; other site 383629004505 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 383629004506 ATP Binding subdomain [chemical binding]; other site 383629004507 Ligand Binding sites [chemical binding]; other site 383629004508 Dimerization subdomain; other site 383629004509 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 383629004510 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 383629004511 catalytic triad [active] 383629004512 dimer interface [polypeptide binding]; other site 383629004513 lipoyl synthase; Provisional; Region: PRK05481 383629004514 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 383629004515 FeS/SAM binding site; other site 383629004516 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 383629004517 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 383629004518 metal binding site [ion binding]; metal-binding site 383629004519 putative dimer interface [polypeptide binding]; other site 383629004520 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 383629004521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629004522 active site 383629004523 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 383629004524 putative coenzyme Q binding site [chemical binding]; other site 383629004525 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 383629004526 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 383629004527 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 383629004528 tetramer interfaces [polypeptide binding]; other site 383629004529 binuclear metal-binding site [ion binding]; other site 383629004530 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 383629004531 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 383629004532 substrate binding site; other site 383629004533 dimer interface; other site 383629004534 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 383629004535 homotrimer interaction site [polypeptide binding]; other site 383629004536 zinc binding site [ion binding]; other site 383629004537 CDP-binding sites; other site 383629004538 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 383629004539 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 383629004540 FMN binding site [chemical binding]; other site 383629004541 active site 383629004542 catalytic residues [active] 383629004543 substrate binding site [chemical binding]; other site 383629004544 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 383629004545 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 383629004546 putative active site [active] 383629004547 heme pocket [chemical binding]; other site 383629004548 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 383629004549 dimer interface [polypeptide binding]; other site 383629004550 phosphorylation site [posttranslational modification] 383629004551 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 383629004552 ATP binding site [chemical binding]; other site 383629004553 G-X-G motif; other site 383629004554 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 383629004555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629004556 active site 383629004557 phosphorylation site [posttranslational modification] 383629004558 intermolecular recognition site; other site 383629004559 dimerization interface [polypeptide binding]; other site 383629004560 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 383629004561 Walker A motif; other site 383629004562 ATP binding site [chemical binding]; other site 383629004563 Walker B motif; other site 383629004564 arginine finger; other site 383629004565 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 383629004566 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 383629004567 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 383629004568 dimerization interface [polypeptide binding]; other site 383629004569 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 383629004570 putative active site [active] 383629004571 heme pocket [chemical binding]; other site 383629004572 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 383629004573 dimer interface [polypeptide binding]; other site 383629004574 phosphorylation site [posttranslational modification] 383629004575 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 383629004576 ATP binding site [chemical binding]; other site 383629004577 Mg2+ binding site [ion binding]; other site 383629004578 G-X-G motif; other site 383629004579 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 383629004580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629004581 active site 383629004582 phosphorylation site [posttranslational modification] 383629004583 intermolecular recognition site; other site 383629004584 dimerization interface [polypeptide binding]; other site 383629004585 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 383629004586 Walker A motif; other site 383629004587 ATP binding site [chemical binding]; other site 383629004588 Walker B motif; other site 383629004589 arginine finger; other site 383629004590 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 383629004591 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 383629004592 TrkA-N domain; Region: TrkA_N; pfam02254 383629004593 TrkA-C domain; Region: TrkA_C; pfam02080 383629004594 TrkA-N domain; Region: TrkA_N; pfam02254 383629004595 TrkA-C domain; Region: TrkA_C; pfam02080 383629004596 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 383629004597 Cation transport protein; Region: TrkH; cl17365 383629004598 bacterial Hfq-like; Region: Hfq; cd01716 383629004599 hexamer interface [polypeptide binding]; other site 383629004600 Sm1 motif; other site 383629004601 RNA binding site [nucleotide binding]; other site 383629004602 Sm2 motif; other site 383629004603 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 383629004604 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 383629004605 HflX GTPase family; Region: HflX; cd01878 383629004606 G1 box; other site 383629004607 GTP/Mg2+ binding site [chemical binding]; other site 383629004608 Switch I region; other site 383629004609 G2 box; other site 383629004610 G3 box; other site 383629004611 Switch II region; other site 383629004612 G4 box; other site 383629004613 G5 box; other site 383629004614 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 383629004615 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 383629004616 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 383629004617 active site 383629004618 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 383629004619 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 383629004620 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 383629004621 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 383629004622 dimer interface [polypeptide binding]; other site 383629004623 active site 383629004624 aspartate-rich active site metal binding site; other site 383629004625 allosteric magnesium binding site [ion binding]; other site 383629004626 Schiff base residues; other site 383629004627 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 383629004628 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 383629004629 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 383629004630 ATP binding site [chemical binding]; other site 383629004631 putative Mg++ binding site [ion binding]; other site 383629004632 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 383629004633 nucleotide binding region [chemical binding]; other site 383629004634 ATP-binding site [chemical binding]; other site 383629004635 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 383629004636 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 383629004637 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 383629004638 putative substrate translocation pore; other site 383629004639 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 383629004640 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 383629004641 catalytic residues [active] 383629004642 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 383629004643 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629004644 acyl-activating enzyme (AAE) consensus motif; other site 383629004645 AMP binding site [chemical binding]; other site 383629004646 active site 383629004647 CoA binding site [chemical binding]; other site 383629004648 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629004649 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 383629004650 non-specific DNA binding site [nucleotide binding]; other site 383629004651 salt bridge; other site 383629004652 sequence-specific DNA binding site [nucleotide binding]; other site 383629004653 Cupin domain; Region: Cupin_2; pfam07883 383629004654 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 383629004655 amphipathic channel; other site 383629004656 Asn-Pro-Ala signature motifs; other site 383629004657 Low molecular weight phosphatase family; Region: LMWPc; cd00115 383629004658 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 383629004659 active site 383629004660 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 383629004661 dimerization interface [polypeptide binding]; other site 383629004662 putative DNA binding site [nucleotide binding]; other site 383629004663 putative Zn2+ binding site [ion binding]; other site 383629004664 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 383629004665 Low molecular weight phosphatase family; Region: LMWPc; cl00105 383629004666 active site 383629004667 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 383629004668 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 383629004669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629004670 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 383629004671 NAD(P) binding site [chemical binding]; other site 383629004672 active site 383629004673 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 383629004674 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 383629004675 active site 383629004676 nucleophile elbow; other site 383629004677 Uncharacterized conserved protein [Function unknown]; Region: COG2928 383629004678 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 383629004679 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 383629004680 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 383629004681 substrate binding site [chemical binding]; other site 383629004682 ATP binding site [chemical binding]; other site 383629004683 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 383629004684 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 383629004685 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 383629004686 thiamine phosphate binding site [chemical binding]; other site 383629004687 active site 383629004688 pyrophosphate binding site [ion binding]; other site 383629004689 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 383629004690 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 383629004691 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 383629004692 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 383629004693 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 383629004694 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 383629004695 active site 383629004696 Zn binding site [ion binding]; other site 383629004697 DNA gyrase subunit A; Validated; Region: PRK05560 383629004698 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 383629004699 CAP-like domain; other site 383629004700 active site 383629004701 primary dimer interface [polypeptide binding]; other site 383629004702 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 383629004703 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 383629004704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 383629004705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 383629004706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 383629004707 Usg-like family; Region: Usg; pfam06233 383629004708 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 383629004709 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 383629004710 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 383629004711 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 383629004712 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 383629004713 putative active site [active] 383629004714 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 383629004715 active site 383629004716 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 383629004717 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 383629004718 catalytic loop [active] 383629004719 iron binding site [ion binding]; other site 383629004720 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 383629004721 CoA-transferase family III; Region: CoA_transf_3; pfam02515 383629004722 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 383629004723 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 383629004724 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 383629004725 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 383629004726 active site 383629004727 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 383629004728 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 383629004729 S-adenosylmethionine binding site [chemical binding]; other site 383629004730 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 383629004731 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 383629004732 dimer interface [polypeptide binding]; other site 383629004733 phosphorylation site [posttranslational modification] 383629004734 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 383629004735 ATP binding site [chemical binding]; other site 383629004736 Mg2+ binding site [ion binding]; other site 383629004737 G-X-G motif; other site 383629004738 Response regulator receiver domain; Region: Response_reg; pfam00072 383629004739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629004740 active site 383629004741 phosphorylation site [posttranslational modification] 383629004742 intermolecular recognition site; other site 383629004743 dimerization interface [polypeptide binding]; other site 383629004744 recombinase A; Provisional; Region: recA; PRK09354 383629004745 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 383629004746 hexamer interface [polypeptide binding]; other site 383629004747 Walker A motif; other site 383629004748 ATP binding site [chemical binding]; other site 383629004749 Walker B motif; other site 383629004750 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 383629004751 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 383629004752 motif 1; other site 383629004753 active site 383629004754 motif 2; other site 383629004755 motif 3; other site 383629004756 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 383629004757 DHHA1 domain; Region: DHHA1; pfam02272 383629004758 Uncharacterized conserved protein [Function unknown]; Region: COG5470 383629004759 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 383629004760 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629004761 Zn binding site [ion binding]; other site 383629004762 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 383629004763 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 383629004764 G1 box; other site 383629004765 putative GEF interaction site [polypeptide binding]; other site 383629004766 GTP/Mg2+ binding site [chemical binding]; other site 383629004767 Switch I region; other site 383629004768 G2 box; other site 383629004769 G3 box; other site 383629004770 Switch II region; other site 383629004771 G4 box; other site 383629004772 G5 box; other site 383629004773 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 383629004774 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 383629004775 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 383629004776 HD domain; Region: HD_3; pfam13023 383629004777 HD domain; Region: HD_3; pfam13023 383629004778 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 383629004779 Transcriptional regulator; Region: Rrf2; cl17282 383629004780 Rrf2 family protein; Region: rrf2_super; TIGR00738 383629004781 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 383629004782 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 383629004783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629004784 catalytic residue [active] 383629004785 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 383629004786 putative ABC transporter; Region: ycf24; CHL00085 383629004787 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 383629004788 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 383629004789 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 383629004790 Walker A/P-loop; other site 383629004791 ATP binding site [chemical binding]; other site 383629004792 Q-loop/lid; other site 383629004793 ABC transporter signature motif; other site 383629004794 Walker B; other site 383629004795 D-loop; other site 383629004796 H-loop/switch region; other site 383629004797 FeS assembly protein SufD; Region: sufD; TIGR01981 383629004798 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 383629004799 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 383629004800 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 383629004801 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629004802 catalytic residue [active] 383629004803 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629004804 binding surface 383629004805 Tetratricopeptide repeat; Region: TPR_16; pfam13432 383629004806 TPR motif; other site 383629004807 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 383629004808 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 383629004809 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 383629004810 Uncharacterized conserved protein [Function unknown]; Region: COG3743 383629004811 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 383629004812 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629004813 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629004814 GTPase CgtA; Reviewed; Region: obgE; PRK12299 383629004815 GTP1/OBG; Region: GTP1_OBG; pfam01018 383629004816 Obg GTPase; Region: Obg; cd01898 383629004817 G1 box; other site 383629004818 GTP/Mg2+ binding site [chemical binding]; other site 383629004819 Switch I region; other site 383629004820 G2 box; other site 383629004821 G3 box; other site 383629004822 Switch II region; other site 383629004823 G4 box; other site 383629004824 G5 box; other site 383629004825 gamma-glutamyl kinase; Provisional; Region: PRK05429 383629004826 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 383629004827 nucleotide binding site [chemical binding]; other site 383629004828 homotetrameric interface [polypeptide binding]; other site 383629004829 putative phosphate binding site [ion binding]; other site 383629004830 putative allosteric binding site; other site 383629004831 PUA domain; Region: PUA; pfam01472 383629004832 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 383629004833 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 383629004834 putative catalytic cysteine [active] 383629004835 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 383629004836 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 383629004837 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 383629004838 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 383629004839 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 383629004840 putative acyl-acceptor binding pocket; other site 383629004841 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 383629004842 rRNA interaction site [nucleotide binding]; other site 383629004843 S8 interaction site; other site 383629004844 putative laminin-1 binding site; other site 383629004845 elongation factor Ts; Provisional; Region: tsf; PRK09377 383629004846 UBA/TS-N domain; Region: UBA; pfam00627 383629004847 Elongation factor TS; Region: EF_TS; pfam00889 383629004848 Elongation factor TS; Region: EF_TS; pfam00889 383629004849 Autoinducer binding domain; Region: Autoind_bind; pfam03472 383629004850 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 383629004851 DNA binding residues [nucleotide binding] 383629004852 dimerization interface [polypeptide binding]; other site 383629004853 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 383629004854 Dehydroquinase class II; Region: DHquinase_II; pfam01220 383629004855 active site 383629004856 trimer interface [polypeptide binding]; other site 383629004857 dimer interface [polypeptide binding]; other site 383629004858 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 383629004859 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 383629004860 NAD(P) binding site [chemical binding]; other site 383629004861 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 383629004862 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 383629004863 FMN binding site [chemical binding]; other site 383629004864 substrate binding site [chemical binding]; other site 383629004865 putative catalytic residue [active] 383629004866 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 383629004867 Phosphotransferase enzyme family; Region: APH; pfam01636 383629004868 putative active site [active] 383629004869 putative substrate binding site [chemical binding]; other site 383629004870 ATP binding site [chemical binding]; other site 383629004871 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 383629004872 Transcriptional regulator [Transcription]; Region: IclR; COG1414 383629004873 Bacterial transcriptional regulator; Region: IclR; pfam01614 383629004874 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 383629004875 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 383629004876 trimer interface [polypeptide binding]; other site 383629004877 Beta-lactamase; Region: Beta-lactamase; pfam00144 383629004878 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 383629004879 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 383629004880 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 383629004881 active site 383629004882 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 383629004883 catalytic triad [active] 383629004884 dimer interface [polypeptide binding]; other site 383629004885 hypothetical protein; Provisional; Region: PRK06194 383629004886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629004887 NAD(P) binding site [chemical binding]; other site 383629004888 active site 383629004889 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 383629004890 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629004891 FAD binding site [chemical binding]; other site 383629004892 substrate binding pocket [chemical binding]; other site 383629004893 catalytic base [active] 383629004894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629004895 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 383629004896 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 383629004897 dimerization interface [polypeptide binding]; other site 383629004898 substrate binding pocket [chemical binding]; other site 383629004899 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 383629004900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629004901 active site 383629004902 phosphorylation site [posttranslational modification] 383629004903 intermolecular recognition site; other site 383629004904 dimerization interface [polypeptide binding]; other site 383629004905 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 383629004906 DNA binding site [nucleotide binding] 383629004907 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 383629004908 PhoU domain; Region: PhoU; pfam01895 383629004909 PhoU domain; Region: PhoU; pfam01895 383629004910 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 383629004911 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 383629004912 Walker A/P-loop; other site 383629004913 ATP binding site [chemical binding]; other site 383629004914 Q-loop/lid; other site 383629004915 ABC transporter signature motif; other site 383629004916 Walker B; other site 383629004917 D-loop; other site 383629004918 H-loop/switch region; other site 383629004919 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 383629004920 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 383629004921 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629004922 dimer interface [polypeptide binding]; other site 383629004923 conserved gate region; other site 383629004924 putative PBP binding loops; other site 383629004925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629004926 ABC-ATPase subunit interface; other site 383629004927 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 383629004928 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 383629004929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629004930 dimer interface [polypeptide binding]; other site 383629004931 conserved gate region; other site 383629004932 putative PBP binding loops; other site 383629004933 ABC-ATPase subunit interface; other site 383629004934 PBP superfamily domain; Region: PBP_like_2; pfam12849 383629004935 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 383629004936 dimer interface [polypeptide binding]; other site 383629004937 phosphorylation site [posttranslational modification] 383629004938 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 383629004939 ATP binding site [chemical binding]; other site 383629004940 Mg2+ binding site [ion binding]; other site 383629004941 G-X-G motif; other site 383629004942 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 383629004943 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 383629004944 homodimer interface [polypeptide binding]; other site 383629004945 substrate-cofactor binding pocket; other site 383629004946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629004947 catalytic residue [active] 383629004948 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 383629004949 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 383629004950 trimer interface [polypeptide binding]; other site 383629004951 putative metal binding site [ion binding]; other site 383629004952 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 383629004953 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 383629004954 catalytic site [active] 383629004955 G-X2-G-X-G-K; other site 383629004956 hypothetical protein; Provisional; Region: PRK11820 383629004957 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 383629004958 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 383629004959 PAS domain; Region: PAS_5; pfam07310 383629004960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 383629004961 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 383629004962 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629004963 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 383629004964 conserved cys residue [active] 383629004965 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629004966 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629004967 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 383629004968 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 383629004969 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 383629004970 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 383629004971 putative ligand binding site [chemical binding]; other site 383629004972 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629004973 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629004974 Walker A/P-loop; other site 383629004975 ATP binding site [chemical binding]; other site 383629004976 Q-loop/lid; other site 383629004977 ABC transporter signature motif; other site 383629004978 Walker B; other site 383629004979 D-loop; other site 383629004980 H-loop/switch region; other site 383629004981 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629004982 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629004983 Walker A/P-loop; other site 383629004984 ATP binding site [chemical binding]; other site 383629004985 Q-loop/lid; other site 383629004986 ABC transporter signature motif; other site 383629004987 Walker B; other site 383629004988 D-loop; other site 383629004989 H-loop/switch region; other site 383629004990 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 383629004991 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629004992 TM-ABC transporter signature motif; other site 383629004993 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 383629004994 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629004995 TM-ABC transporter signature motif; other site 383629004996 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 383629004997 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 383629004998 Walker A motif; other site 383629004999 ATP binding site [chemical binding]; other site 383629005000 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 383629005001 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 383629005002 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 383629005003 dimer interface [polypeptide binding]; other site 383629005004 active site 383629005005 acyl carrier protein; Provisional; Region: acpP; PRK00982 383629005006 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 383629005007 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 383629005008 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 383629005009 trimer interface [polypeptide binding]; other site 383629005010 active site 383629005011 UDP-GlcNAc binding site [chemical binding]; other site 383629005012 lipid binding site [chemical binding]; lipid-binding site 383629005013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 383629005014 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629005015 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 383629005016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 383629005017 Peptidase M15; Region: Peptidase_M15_3; cl01194 383629005018 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 383629005019 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 383629005020 substrate binding pocket [chemical binding]; other site 383629005021 dimer interface [polypeptide binding]; other site 383629005022 inhibitor binding site; inhibition site 383629005023 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 383629005024 FAD binding site [chemical binding]; other site 383629005025 Virulence factor; Region: Virulence_fact; pfam13769 383629005026 exopolyphosphatase; Region: exo_poly_only; TIGR03706 383629005027 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 383629005028 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 383629005029 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 383629005030 S-adenosylmethionine binding site [chemical binding]; other site 383629005031 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 383629005032 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 383629005033 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 383629005034 putative active site [active] 383629005035 catalytic site [active] 383629005036 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 383629005037 putative active site [active] 383629005038 catalytic site [active] 383629005039 Ion channel; Region: Ion_trans_2; pfam07885 383629005040 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 383629005041 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 383629005042 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 383629005043 Walker A/P-loop; other site 383629005044 ATP binding site [chemical binding]; other site 383629005045 Q-loop/lid; other site 383629005046 ABC transporter signature motif; other site 383629005047 Walker B; other site 383629005048 D-loop; other site 383629005049 H-loop/switch region; other site 383629005050 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 383629005051 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 383629005052 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 383629005053 Ligand Binding Site [chemical binding]; other site 383629005054 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 383629005055 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629005056 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 383629005057 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 383629005058 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 383629005059 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 383629005060 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 383629005061 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 383629005062 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 383629005063 catalytic loop [active] 383629005064 iron binding site [ion binding]; other site 383629005065 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 383629005066 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 383629005067 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 383629005068 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 383629005069 Ubiquitin-like proteins; Region: UBQ; cl00155 383629005070 charged pocket; other site 383629005071 hydrophobic patch; other site 383629005072 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 383629005073 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 383629005074 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 383629005075 intersubunit interface [polypeptide binding]; other site 383629005076 active site 383629005077 Zn2+ binding site [ion binding]; other site 383629005078 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 383629005079 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 383629005080 active site 383629005081 dimer interface [polypeptide binding]; other site 383629005082 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 383629005083 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 383629005084 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629005085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629005086 dimer interface [polypeptide binding]; other site 383629005087 conserved gate region; other site 383629005088 putative PBP binding loops; other site 383629005089 ABC-ATPase subunit interface; other site 383629005090 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 383629005091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629005092 dimer interface [polypeptide binding]; other site 383629005093 conserved gate region; other site 383629005094 ABC-ATPase subunit interface; other site 383629005095 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 383629005096 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629005097 Walker A/P-loop; other site 383629005098 ATP binding site [chemical binding]; other site 383629005099 Q-loop/lid; other site 383629005100 ABC transporter signature motif; other site 383629005101 Walker B; other site 383629005102 D-loop; other site 383629005103 H-loop/switch region; other site 383629005104 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629005105 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 383629005106 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629005107 Walker A/P-loop; other site 383629005108 ATP binding site [chemical binding]; other site 383629005109 Q-loop/lid; other site 383629005110 ABC transporter signature motif; other site 383629005111 Walker B; other site 383629005112 D-loop; other site 383629005113 H-loop/switch region; other site 383629005114 HD domain; Region: HD_5; pfam13487 383629005115 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 383629005116 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 383629005117 Zn2+ binding site [ion binding]; other site 383629005118 Mg2+ binding site [ion binding]; other site 383629005119 Predicted membrane protein [Function unknown]; Region: COG1238 383629005120 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 383629005121 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629005122 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 383629005123 AsnC family; Region: AsnC_trans_reg; pfam01037 383629005124 Arginase family; Region: Arginase; cd09989 383629005125 active site 383629005126 Mn binding site [ion binding]; other site 383629005127 oligomer interface [polypeptide binding]; other site 383629005128 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 383629005129 Amidinotransferase; Region: Amidinotransf; pfam02274 383629005130 ornithine cyclodeaminase; Validated; Region: PRK07589 383629005131 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 383629005132 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 383629005133 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 383629005134 active site 383629005135 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 383629005136 pseudouridine synthase; Region: TIGR00093 383629005137 active site 383629005138 putative hydrolase; Provisional; Region: PRK11460 383629005139 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 383629005140 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 383629005141 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 383629005142 helix-hairpin-helix signature motif; other site 383629005143 substrate binding pocket [chemical binding]; other site 383629005144 active site 383629005145 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629005146 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 383629005147 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 383629005148 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 383629005149 active site 383629005150 catalytic residues [active] 383629005151 metal binding site [ion binding]; metal-binding site 383629005152 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 383629005153 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 383629005154 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629005155 active site 383629005156 HIGH motif; other site 383629005157 nucleotide binding site [chemical binding]; other site 383629005158 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 383629005159 KMSKS motif; other site 383629005160 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 383629005161 tRNA binding surface [nucleotide binding]; other site 383629005162 anticodon binding site; other site 383629005163 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 383629005164 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 383629005165 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 383629005166 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 383629005167 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 383629005168 active site 383629005169 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629005170 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629005171 Walker A/P-loop; other site 383629005172 ATP binding site [chemical binding]; other site 383629005173 Q-loop/lid; other site 383629005174 ABC transporter signature motif; other site 383629005175 Walker B; other site 383629005176 D-loop; other site 383629005177 H-loop/switch region; other site 383629005178 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629005179 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629005180 Walker A/P-loop; other site 383629005181 ATP binding site [chemical binding]; other site 383629005182 Q-loop/lid; other site 383629005183 ABC transporter signature motif; other site 383629005184 Walker B; other site 383629005185 D-loop; other site 383629005186 H-loop/switch region; other site 383629005187 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629005188 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 383629005189 TM-ABC transporter signature motif; other site 383629005190 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 383629005191 TM-ABC transporter signature motif; other site 383629005192 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629005193 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 383629005194 putative ligand binding site [chemical binding]; other site 383629005195 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 383629005196 CheB methylesterase; Region: CheB_methylest; pfam01339 383629005197 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 383629005198 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 383629005199 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 383629005200 PAS domain; Region: PAS_10; pfam13596 383629005201 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 383629005202 PAS fold; Region: PAS_3; pfam08447 383629005203 putative active site [active] 383629005204 heme pocket [chemical binding]; other site 383629005205 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 383629005206 TPP-binding site [chemical binding]; other site 383629005207 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 383629005208 PYR/PP interface [polypeptide binding]; other site 383629005209 dimer interface [polypeptide binding]; other site 383629005210 TPP binding site [chemical binding]; other site 383629005211 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 383629005212 methionine gamma-lyase; Provisional; Region: PRK07503 383629005213 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 383629005214 homodimer interface [polypeptide binding]; other site 383629005215 substrate-cofactor binding pocket; other site 383629005216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629005217 catalytic residue [active] 383629005218 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629005219 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 383629005220 dimerization interface [polypeptide binding]; other site 383629005221 putative DNA binding site [nucleotide binding]; other site 383629005222 putative Zn2+ binding site [ion binding]; other site 383629005223 AsnC family; Region: AsnC_trans_reg; pfam01037 383629005224 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 383629005225 cyclase homology domain; Region: CHD; cd07302 383629005226 nucleotidyl binding site; other site 383629005227 metal binding site [ion binding]; metal-binding site 383629005228 dimer interface [polypeptide binding]; other site 383629005229 Predicted integral membrane protein [Function unknown]; Region: COG5616 383629005230 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629005231 binding surface 383629005232 TPR repeat; Region: TPR_11; pfam13414 383629005233 TPR motif; other site 383629005234 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629005235 TPR motif; other site 383629005236 binding surface 383629005237 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 383629005238 active site 383629005239 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 383629005240 putative active cleft [active] 383629005241 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 383629005242 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629005243 Walker A/P-loop; other site 383629005244 ATP binding site [chemical binding]; other site 383629005245 Q-loop/lid; other site 383629005246 ABC transporter signature motif; other site 383629005247 Walker B; other site 383629005248 D-loop; other site 383629005249 H-loop/switch region; other site 383629005250 TOBE domain; Region: TOBE_2; pfam08402 383629005251 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629005252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629005253 dimer interface [polypeptide binding]; other site 383629005254 conserved gate region; other site 383629005255 putative PBP binding loops; other site 383629005256 ABC-ATPase subunit interface; other site 383629005257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629005258 dimer interface [polypeptide binding]; other site 383629005259 conserved gate region; other site 383629005260 putative PBP binding loops; other site 383629005261 ABC-ATPase subunit interface; other site 383629005262 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629005263 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629005264 hypothetical protein; Provisional; Region: PRK05968 383629005265 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 383629005266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629005267 catalytic residue [active] 383629005268 Transcriptional regulators [Transcription]; Region: FadR; COG2186 383629005269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629005270 DNA-binding site [nucleotide binding]; DNA binding site 383629005271 FCD domain; Region: FCD; pfam07729 383629005272 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 383629005273 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 383629005274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629005275 metal binding site [ion binding]; metal-binding site 383629005276 active site 383629005277 I-site; other site 383629005278 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 383629005279 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 383629005280 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629005281 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 383629005282 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 383629005283 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 383629005284 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 383629005285 active site 383629005286 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 383629005287 TSCPD domain; Region: TSCPD; pfam12637 383629005288 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 383629005289 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 383629005290 DNA-binding site [nucleotide binding]; DNA binding site 383629005291 RNA-binding motif; other site 383629005292 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 383629005293 DNA-binding site [nucleotide binding]; DNA binding site 383629005294 RNA-binding motif; other site 383629005295 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 383629005296 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 383629005297 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 383629005298 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 383629005299 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 383629005300 NAD binding site [chemical binding]; other site 383629005301 homotetramer interface [polypeptide binding]; other site 383629005302 homodimer interface [polypeptide binding]; other site 383629005303 substrate binding site [chemical binding]; other site 383629005304 active site 383629005305 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629005306 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629005307 active site 383629005308 hypothetical protein; Provisional; Region: PRK07550 383629005309 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 383629005310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629005311 homodimer interface [polypeptide binding]; other site 383629005312 catalytic residue [active] 383629005313 SurA N-terminal domain; Region: SurA_N_3; cl07813 383629005314 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 383629005315 anthranilate synthase component I; Provisional; Region: PRK13573 383629005316 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 383629005317 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 383629005318 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 383629005319 NodB motif; other site 383629005320 putative active site [active] 383629005321 putative catalytic site [active] 383629005322 Zn binding site [ion binding]; other site 383629005323 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 383629005324 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 383629005325 glutamine binding [chemical binding]; other site 383629005326 catalytic triad [active] 383629005327 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 383629005328 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 383629005329 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 383629005330 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 383629005331 ligand binding site [chemical binding]; other site 383629005332 active site 383629005333 UGI interface [polypeptide binding]; other site 383629005334 catalytic site [active] 383629005335 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 383629005336 active site 383629005337 ribulose/triose binding site [chemical binding]; other site 383629005338 phosphate binding site [ion binding]; other site 383629005339 substrate (anthranilate) binding pocket [chemical binding]; other site 383629005340 product (indole) binding pocket [chemical binding]; other site 383629005341 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 383629005342 trimer interface [polypeptide binding]; other site 383629005343 dimer interface [polypeptide binding]; other site 383629005344 putative active site [active] 383629005345 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 383629005346 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 383629005347 dimer interface [polypeptide binding]; other site 383629005348 putative functional site; other site 383629005349 putative MPT binding site; other site 383629005350 LexA repressor; Validated; Region: PRK00215 383629005351 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 383629005352 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 383629005353 Catalytic site [active] 383629005354 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 383629005355 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 383629005356 Competence protein; Region: Competence; pfam03772 383629005357 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 383629005358 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629005359 active site 383629005360 HIGH motif; other site 383629005361 nucleotide binding site [chemical binding]; other site 383629005362 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 383629005363 active site 383629005364 KMSKS motif; other site 383629005365 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 383629005366 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 383629005367 dimer interface [polypeptide binding]; other site 383629005368 active site 383629005369 citrylCoA binding site [chemical binding]; other site 383629005370 NADH binding [chemical binding]; other site 383629005371 cationic pore residues; other site 383629005372 oxalacetate/citrate binding site [chemical binding]; other site 383629005373 coenzyme A binding site [chemical binding]; other site 383629005374 catalytic triad [active] 383629005375 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629005376 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629005377 enoyl-CoA hydratase; Provisional; Region: PRK08140 383629005378 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 383629005379 substrate binding site [chemical binding]; other site 383629005380 oxyanion hole (OAH) forming residues; other site 383629005381 trimer interface [polypeptide binding]; other site 383629005382 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 383629005383 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 383629005384 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 383629005385 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 383629005386 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 383629005387 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 383629005388 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 383629005389 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 383629005390 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 383629005391 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 383629005392 putative acyl-acceptor binding pocket; other site 383629005393 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 383629005394 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 383629005395 dimer interface [polypeptide binding]; other site 383629005396 PYR/PP interface [polypeptide binding]; other site 383629005397 TPP binding site [chemical binding]; other site 383629005398 substrate binding site [chemical binding]; other site 383629005399 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 383629005400 TPP-binding site [chemical binding]; other site 383629005401 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 383629005402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629005403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629005404 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629005405 putative effector binding pocket; other site 383629005406 dimerization interface [polypeptide binding]; other site 383629005407 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 383629005408 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 383629005409 dimerization interface [polypeptide binding]; other site 383629005410 ATP binding site [chemical binding]; other site 383629005411 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 383629005412 dimerization interface [polypeptide binding]; other site 383629005413 ATP binding site [chemical binding]; other site 383629005414 hypothetical protein; Provisional; Region: PRK09866 383629005415 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 383629005416 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 383629005417 putative GSH binding site [chemical binding]; other site 383629005418 catalytic residues [active] 383629005419 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 383629005420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629005421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629005422 Cell division protein ZapA; Region: ZapA; pfam05164 383629005423 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 383629005424 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 383629005425 TPP-binding site [chemical binding]; other site 383629005426 dimer interface [polypeptide binding]; other site 383629005427 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 383629005428 PYR/PP interface [polypeptide binding]; other site 383629005429 dimer interface [polypeptide binding]; other site 383629005430 TPP binding site [chemical binding]; other site 383629005431 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 383629005432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 383629005433 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 383629005434 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 383629005435 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 383629005436 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 383629005437 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 383629005438 active site 383629005439 (T/H)XGH motif; other site 383629005440 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 383629005441 FOG: CBS domain [General function prediction only]; Region: COG0517 383629005442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629005443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629005444 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 383629005445 dimerization interface [polypeptide binding]; other site 383629005446 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 383629005447 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 383629005448 tetrameric interface [polypeptide binding]; other site 383629005449 NAD binding site [chemical binding]; other site 383629005450 catalytic residues [active] 383629005451 Fatty acid desaturase; Region: FA_desaturase; pfam00487 383629005452 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 383629005453 putative di-iron ligands [ion binding]; other site 383629005454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 383629005455 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 383629005456 TPR repeat; Region: TPR_11; pfam13414 383629005457 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629005458 binding surface 383629005459 TPR motif; other site 383629005460 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 383629005461 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629005462 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629005463 active site 383629005464 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 383629005465 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 383629005466 substrate binding site [chemical binding]; other site 383629005467 oxyanion hole (OAH) forming residues; other site 383629005468 trimer interface [polypeptide binding]; other site 383629005469 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 383629005470 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 383629005471 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 383629005472 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 383629005473 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 383629005474 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 383629005475 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 383629005476 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 383629005477 putative substrate translocation pore; other site 383629005478 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 383629005479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629005480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629005481 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 383629005482 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 383629005483 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 383629005484 Major Facilitator Superfamily; Region: MFS_1; pfam07690 383629005485 putative substrate translocation pore; other site 383629005486 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 383629005487 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 383629005488 Protein of unknown function; Region: DUF3971; pfam13116 383629005489 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 383629005490 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 383629005491 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 383629005492 catalytic triad [active] 383629005493 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 383629005494 dinuclear metal binding motif [ion binding]; other site 383629005495 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 383629005496 Peptidase family M23; Region: Peptidase_M23; pfam01551 383629005497 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 383629005498 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629005499 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 383629005500 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 383629005501 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 383629005502 active site 383629005503 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 383629005504 active site 383629005505 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 383629005506 Phosphoglycerate kinase; Region: PGK; pfam00162 383629005507 substrate binding site [chemical binding]; other site 383629005508 hinge regions; other site 383629005509 ADP binding site [chemical binding]; other site 383629005510 catalytic site [active] 383629005511 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 383629005512 Septum formation initiator; Region: DivIC; pfam04977 383629005513 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 383629005514 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 383629005515 tetramer interface [polypeptide binding]; other site 383629005516 TPP-binding site [chemical binding]; other site 383629005517 heterodimer interface [polypeptide binding]; other site 383629005518 phosphorylation loop region [posttranslational modification] 383629005519 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 383629005520 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 383629005521 E3 interaction surface; other site 383629005522 lipoyl attachment site [posttranslational modification]; other site 383629005523 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 383629005524 alpha subunit interface [polypeptide binding]; other site 383629005525 TPP binding site [chemical binding]; other site 383629005526 heterodimer interface [polypeptide binding]; other site 383629005527 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 383629005528 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 383629005529 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 383629005530 E3 interaction surface; other site 383629005531 lipoyl attachment site [posttranslational modification]; other site 383629005532 e3 binding domain; Region: E3_binding; pfam02817 383629005533 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 383629005534 serine acetyltransferase; Provisional; Region: cysE; PRK11132 383629005535 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 383629005536 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 383629005537 trimer interface [polypeptide binding]; other site 383629005538 active site 383629005539 substrate binding site [chemical binding]; other site 383629005540 CoA binding site [chemical binding]; other site 383629005541 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 383629005542 Putative phage tail protein; Region: Phage-tail_3; pfam13550 383629005543 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 383629005544 NlpC/P60 family; Region: NLPC_P60; cl17555 383629005545 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 383629005546 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 383629005547 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 383629005548 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 383629005549 Phage-related minor tail protein [Function unknown]; Region: COG5281 383629005550 phage conserved hypothetical protein; Region: phage_TIGR02216 383629005551 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 383629005552 Phage major tail protein 2; Region: Phage_tail_2; cl11463 383629005553 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 383629005554 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 383629005555 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 383629005556 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 383629005557 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 383629005558 oligomerization interface [polypeptide binding]; other site 383629005559 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 383629005560 Phage capsid family; Region: Phage_capsid; pfam05065 383629005561 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 383629005562 Phage-related protein [Function unknown]; Region: COG4695 383629005563 Phage portal protein; Region: Phage_portal; pfam04860 383629005564 Uncharacterized conserved protein [Function unknown]; Region: COG5323 383629005565 Terminase-like family; Region: Terminase_6; pfam03237 383629005566 YceG-like family; Region: YceG; pfam02618 383629005567 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 383629005568 dimerization interface [polypeptide binding]; other site 383629005569 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 383629005570 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 383629005571 dimer interface [polypeptide binding]; other site 383629005572 active site 383629005573 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 383629005574 PilZ domain; Region: PilZ; pfam07238 383629005575 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 383629005576 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 383629005577 catalytic residues [active] 383629005578 acyl carrier protein; Provisional; Region: acpP; PRK00982 383629005579 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 383629005580 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 383629005581 NAD(P) binding site [chemical binding]; other site 383629005582 homotetramer interface [polypeptide binding]; other site 383629005583 homodimer interface [polypeptide binding]; other site 383629005584 active site 383629005585 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 383629005586 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 383629005587 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 383629005588 YceI-like domain; Region: YceI; pfam04264 383629005589 Uncharacterized conserved protein [Function unknown]; Region: COG2353 383629005590 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 383629005591 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 383629005592 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 383629005593 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 383629005594 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 383629005595 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 383629005596 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 383629005597 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629005598 catalytic residue [active] 383629005599 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 383629005600 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 383629005601 active site 383629005602 metal binding site [ion binding]; metal-binding site 383629005603 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 383629005604 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629005605 trigger factor; Provisional; Region: tig; PRK01490 383629005606 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 383629005607 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 383629005608 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 383629005609 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 383629005610 HAMP domain; Region: HAMP; pfam00672 383629005611 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629005612 dimer interface [polypeptide binding]; other site 383629005613 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 383629005614 putative CheW interface [polypeptide binding]; other site 383629005615 Uncharacterized conserved protein [Function unknown]; Region: COG0062 383629005616 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 383629005617 putative substrate binding site [chemical binding]; other site 383629005618 putative ATP binding site [chemical binding]; other site 383629005619 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 383629005620 Nitrogen regulatory protein P-II; Region: P-II; smart00938 383629005621 glutamine synthetase; Provisional; Region: glnA; PRK09469 383629005622 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 383629005623 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629005624 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 383629005625 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629005626 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629005627 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 383629005628 active site 383629005629 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 383629005630 nudix motif; other site 383629005631 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 383629005632 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 383629005633 adenylosuccinate lyase; Provisional; Region: PRK07492 383629005634 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 383629005635 tetramer interface [polypeptide binding]; other site 383629005636 active site 383629005637 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 383629005638 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 383629005639 binding surface 383629005640 TPR motif; other site 383629005641 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629005642 TPR motif; other site 383629005643 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 383629005644 FliG C-terminal domain; Region: FliG_C; pfam01706 383629005645 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 383629005646 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 383629005647 putative acyl-acceptor binding pocket; other site 383629005648 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 383629005649 aconitate hydratase; Validated; Region: PRK09277 383629005650 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 383629005651 substrate binding site [chemical binding]; other site 383629005652 ligand binding site [chemical binding]; other site 383629005653 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 383629005654 substrate binding site [chemical binding]; other site 383629005655 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 383629005656 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 383629005657 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 383629005658 catalytic residues [active] 383629005659 central insert; other site 383629005660 heme exporter protein CcmC; Region: ccmC; TIGR01191 383629005661 heme exporter protein CcmB; Region: ccmB; TIGR01190 383629005662 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 383629005663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629005664 Walker A/P-loop; other site 383629005665 ATP binding site [chemical binding]; other site 383629005666 Q-loop/lid; other site 383629005667 ABC transporter signature motif; other site 383629005668 Walker B; other site 383629005669 D-loop; other site 383629005670 H-loop/switch region; other site 383629005671 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 383629005672 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 383629005673 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 383629005674 Protein export membrane protein; Region: SecD_SecF; pfam02355 383629005675 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 383629005676 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 383629005677 Preprotein translocase subunit; Region: YajC; pfam02699 383629005678 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 383629005679 seryl-tRNA synthetase; Provisional; Region: PRK05431 383629005680 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 383629005681 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 383629005682 dimer interface [polypeptide binding]; other site 383629005683 active site 383629005684 motif 1; other site 383629005685 motif 2; other site 383629005686 motif 3; other site 383629005687 Pathogenicity locus; Region: Cdd1; pfam11731 383629005688 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 383629005689 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 383629005690 putative di-iron ligands [ion binding]; other site 383629005691 GTP-binding protein Der; Reviewed; Region: PRK00093 383629005692 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 383629005693 G1 box; other site 383629005694 GTP/Mg2+ binding site [chemical binding]; other site 383629005695 Switch I region; other site 383629005696 G2 box; other site 383629005697 Switch II region; other site 383629005698 G3 box; other site 383629005699 G4 box; other site 383629005700 G5 box; other site 383629005701 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 383629005702 G1 box; other site 383629005703 GTP/Mg2+ binding site [chemical binding]; other site 383629005704 Switch I region; other site 383629005705 G2 box; other site 383629005706 G3 box; other site 383629005707 Switch II region; other site 383629005708 G4 box; other site 383629005709 G5 box; other site 383629005710 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 383629005711 Trp docking motif [polypeptide binding]; other site 383629005712 active site 383629005713 PQQ-like domain; Region: PQQ_2; pfam13360 383629005714 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 383629005715 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629005716 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 383629005717 Protein export membrane protein; Region: SecD_SecF; cl14618 383629005718 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 383629005719 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629005720 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 383629005721 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 383629005722 Walker A/P-loop; other site 383629005723 ATP binding site [chemical binding]; other site 383629005724 Q-loop/lid; other site 383629005725 ABC transporter signature motif; other site 383629005726 Walker B; other site 383629005727 D-loop; other site 383629005728 H-loop/switch region; other site 383629005729 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 383629005730 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 383629005731 Protein required for attachment to host cells; Region: Host_attach; pfam10116 383629005732 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 383629005733 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 383629005734 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 383629005735 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629005736 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 383629005737 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 383629005738 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629005739 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 383629005740 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 383629005741 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629005742 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 383629005743 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 383629005744 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 383629005745 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 383629005746 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 383629005747 active site 383629005748 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 383629005749 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 383629005750 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 383629005751 FMN binding site [chemical binding]; other site 383629005752 active site 383629005753 catalytic residues [active] 383629005754 substrate binding site [chemical binding]; other site 383629005755 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629005756 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 383629005757 ligand binding site [chemical binding]; other site 383629005758 flexible hinge region; other site 383629005759 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 383629005760 putative switch regulator; other site 383629005761 non-specific DNA interactions [nucleotide binding]; other site 383629005762 DNA binding site [nucleotide binding] 383629005763 sequence specific DNA binding site [nucleotide binding]; other site 383629005764 putative cAMP binding site [chemical binding]; other site 383629005765 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 383629005766 putative active site [active] 383629005767 heme pocket [chemical binding]; other site 383629005768 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629005769 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 383629005770 dimer interface [polypeptide binding]; other site 383629005771 phosphorylation site [posttranslational modification] 383629005772 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 383629005773 ATP binding site [chemical binding]; other site 383629005774 Mg2+ binding site [ion binding]; other site 383629005775 G-X-G motif; other site 383629005776 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629005777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629005778 active site 383629005779 phosphorylation site [posttranslational modification] 383629005780 intermolecular recognition site; other site 383629005781 dimerization interface [polypeptide binding]; other site 383629005782 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 383629005783 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629005784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629005785 active site 383629005786 phosphorylation site [posttranslational modification] 383629005787 intermolecular recognition site; other site 383629005788 dimerization interface [polypeptide binding]; other site 383629005789 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 383629005790 DNA binding residues [nucleotide binding] 383629005791 dimerization interface [polypeptide binding]; other site 383629005792 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 383629005793 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 383629005794 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 383629005795 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629005796 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 383629005797 ligand binding site [chemical binding]; other site 383629005798 flexible hinge region; other site 383629005799 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 383629005800 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 383629005801 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 383629005802 high affinity sulphate transporter 1; Region: sulP; TIGR00815 383629005803 Sulfate transporter family; Region: Sulfate_transp; pfam00916 383629005804 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 383629005805 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 383629005806 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 383629005807 active site 383629005808 Cupin domain; Region: Cupin_2; cl17218 383629005809 TfoX C-terminal domain; Region: TfoX_C; pfam04994 383629005810 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 383629005811 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 383629005812 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 383629005813 active site 383629005814 multimer interface [polypeptide binding]; other site 383629005815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629005816 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 383629005817 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629005818 ABC transporter; Region: ABC_tran_2; pfam12848 383629005819 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629005820 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 383629005821 Predicted aspartyl protease [General function prediction only]; Region: COG3577 383629005822 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 383629005823 catalytic motif [active] 383629005824 Catalytic residue [active] 383629005825 DNA polymerase III subunit chi; Validated; Region: PRK05728 383629005826 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 383629005827 multifunctional aminopeptidase A; Provisional; Region: PRK00913 383629005828 interface (dimer of trimers) [polypeptide binding]; other site 383629005829 Substrate-binding/catalytic site; other site 383629005830 Zn-binding sites [ion binding]; other site 383629005831 Predicted permeases [General function prediction only]; Region: COG0795 383629005832 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 383629005833 Predicted permeases [General function prediction only]; Region: COG0795 383629005834 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 383629005835 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 383629005836 OstA-like protein; Region: OstA; cl00844 383629005837 Organic solvent tolerance protein; Region: OstA_C; pfam04453 383629005838 SurA N-terminal domain; Region: SurA_N; pfam09312 383629005839 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 383629005840 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 383629005841 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 383629005842 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 383629005843 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 383629005844 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 383629005845 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 383629005846 S-adenosylmethionine binding site [chemical binding]; other site 383629005847 peptide chain release factor 1; Validated; Region: prfA; PRK00591 383629005848 This domain is found in peptide chain release factors; Region: PCRF; smart00937 383629005849 RF-1 domain; Region: RF-1; pfam00472 383629005850 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 383629005851 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 383629005852 agmatinase; Region: agmatinase; TIGR01230 383629005853 oligomer interface [polypeptide binding]; other site 383629005854 putative active site [active] 383629005855 Mn binding site [ion binding]; other site 383629005856 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 383629005857 agmatinase; Region: agmatinase; TIGR01230 383629005858 oligomer interface [polypeptide binding]; other site 383629005859 putative active site [active] 383629005860 Mn binding site [ion binding]; other site 383629005861 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 383629005862 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 383629005863 metal binding site [ion binding]; metal-binding site 383629005864 putative dimer interface [polypeptide binding]; other site 383629005865 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 383629005866 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 383629005867 homodimer interface [polypeptide binding]; other site 383629005868 metal binding site [ion binding]; metal-binding site 383629005869 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 383629005870 homodimer interface [polypeptide binding]; other site 383629005871 active site 383629005872 putative chemical substrate binding site [chemical binding]; other site 383629005873 metal binding site [ion binding]; metal-binding site 383629005874 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 383629005875 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 383629005876 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 383629005877 PIN domain; Region: PIN_3; pfam13470 383629005878 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 383629005879 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 383629005880 putative RNA binding site [nucleotide binding]; other site 383629005881 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 383629005882 S-adenosylmethionine binding site [chemical binding]; other site 383629005883 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 383629005884 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 383629005885 metal binding triad; other site 383629005886 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 383629005887 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 383629005888 metal binding triad; other site 383629005889 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 383629005890 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 383629005891 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 383629005892 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 383629005893 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 383629005894 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 383629005895 active site 383629005896 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 383629005897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629005898 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 383629005899 dimerization interface [polypeptide binding]; other site 383629005900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629005901 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 383629005902 Walker A/P-loop; other site 383629005903 ATP binding site [chemical binding]; other site 383629005904 Q-loop/lid; other site 383629005905 ABC transporter signature motif; other site 383629005906 Walker B; other site 383629005907 D-loop; other site 383629005908 H-loop/switch region; other site 383629005909 TOBE domain; Region: TOBE_2; pfam08402 383629005910 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 383629005911 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 383629005912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629005913 dimer interface [polypeptide binding]; other site 383629005914 conserved gate region; other site 383629005915 putative PBP binding loops; other site 383629005916 ABC-ATPase subunit interface; other site 383629005917 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 383629005918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629005919 dimer interface [polypeptide binding]; other site 383629005920 conserved gate region; other site 383629005921 putative PBP binding loops; other site 383629005922 ABC-ATPase subunit interface; other site 383629005923 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 383629005924 FAD binding domain; Region: FAD_binding_4; pfam01565 383629005925 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 383629005926 extended (e) SDRs; Region: SDR_e; cd08946 383629005927 NAD(P) binding site [chemical binding]; other site 383629005928 active site 383629005929 substrate binding site [chemical binding]; other site 383629005930 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 383629005931 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 383629005932 NAD binding site [chemical binding]; other site 383629005933 homotetramer interface [polypeptide binding]; other site 383629005934 homodimer interface [polypeptide binding]; other site 383629005935 substrate binding site [chemical binding]; other site 383629005936 active site 383629005937 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 383629005938 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 383629005939 substrate binding site; other site 383629005940 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 383629005941 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 383629005942 inhibitor-cofactor binding pocket; inhibition site 383629005943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629005944 catalytic residue [active] 383629005945 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 383629005946 Winged helix-turn helix; Region: HTH_29; pfam13551 383629005947 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629005948 Integrase core domain; Region: rve; pfam00665 383629005949 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629005950 Integrase core domain; Region: rve_3; pfam13683 383629005951 P-loop containing region of AAA domain; Region: AAA_29; cl17516 383629005952 AAA domain; Region: AAA_21; pfam13304 383629005953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629005954 Walker B; other site 383629005955 D-loop; other site 383629005956 H-loop/switch region; other site 383629005957 AAA domain; Region: AAA_21; pfam13304 383629005958 Autoinducer synthetase; Region: Autoind_synth; cl17404 383629005959 Autoinducer binding domain; Region: Autoind_bind; pfam03472 383629005960 DNA binding residues [nucleotide binding] 383629005961 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 383629005962 dimerization interface [polypeptide binding]; other site 383629005963 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629005964 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 383629005965 non-specific DNA binding site [nucleotide binding]; other site 383629005966 salt bridge; other site 383629005967 sequence-specific DNA binding site [nucleotide binding]; other site 383629005968 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 383629005969 ParB-like nuclease domain; Region: ParB; smart00470 383629005970 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 383629005971 RDD family; Region: RDD; pfam06271 383629005972 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 383629005973 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 383629005974 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 383629005975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629005976 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 383629005977 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629005978 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629005979 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 383629005980 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 383629005981 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629005982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 383629005983 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 383629005984 Histidine kinase; Region: HisKA_3; pfam07730 383629005985 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 383629005986 ATP binding site [chemical binding]; other site 383629005987 Mg2+ binding site [ion binding]; other site 383629005988 G-X-G motif; other site 383629005989 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629005990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629005991 active site 383629005992 phosphorylation site [posttranslational modification] 383629005993 intermolecular recognition site; other site 383629005994 dimerization interface [polypeptide binding]; other site 383629005995 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 383629005996 DNA binding residues [nucleotide binding] 383629005997 dimerization interface [polypeptide binding]; other site 383629005998 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 383629005999 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 383629006000 PYR/PP interface [polypeptide binding]; other site 383629006001 dimer interface [polypeptide binding]; other site 383629006002 TPP binding site [chemical binding]; other site 383629006003 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 383629006004 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 383629006005 TPP-binding site [chemical binding]; other site 383629006006 dimer interface [polypeptide binding]; other site 383629006007 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 383629006008 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 383629006009 putative valine binding site [chemical binding]; other site 383629006010 dimer interface [polypeptide binding]; other site 383629006011 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 383629006012 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629006013 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 383629006014 non-specific DNA binding site [nucleotide binding]; other site 383629006015 sequence-specific DNA binding site [nucleotide binding]; other site 383629006016 salt bridge; other site 383629006017 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 383629006018 amidase; Provisional; Region: PRK07486 383629006019 Amidase; Region: Amidase; cl11426 383629006020 peptide chain release factor 2; Validated; Region: prfB; PRK00578 383629006021 This domain is found in peptide chain release factors; Region: PCRF; smart00937 383629006022 RF-1 domain; Region: RF-1; pfam00472 383629006023 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 383629006024 Transglycosylase; Region: Transgly; pfam00912 383629006025 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 383629006026 AMIN domain; Region: AMIN; pfam11741 383629006027 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 383629006028 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 383629006029 active site 383629006030 metal binding site [ion binding]; metal-binding site 383629006031 aspartate aminotransferase; Provisional; Region: PRK05764 383629006032 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 383629006033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629006034 homodimer interface [polypeptide binding]; other site 383629006035 catalytic residue [active] 383629006036 Peptidase family M48; Region: Peptidase_M48; cl12018 383629006037 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629006038 TPR motif; other site 383629006039 TPR repeat; Region: TPR_11; pfam13414 383629006040 binding surface 383629006041 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 383629006042 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 383629006043 catalytic residues [active] 383629006044 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 383629006045 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 383629006046 Helix-turn-helix domain; Region: HTH_25; pfam13413 383629006047 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 383629006048 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 383629006049 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 383629006050 substrate-cofactor binding pocket; other site 383629006051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629006052 catalytic residue [active] 383629006053 hypothetical protein; Validated; Region: PRK09104 383629006054 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 383629006055 metal binding site [ion binding]; metal-binding site 383629006056 putative dimer interface [polypeptide binding]; other site 383629006057 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 383629006058 catalytic core [active] 383629006059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629006060 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 383629006061 putative DNA binding site [nucleotide binding]; other site 383629006062 putative Zn2+ binding site [ion binding]; other site 383629006063 AsnC family; Region: AsnC_trans_reg; pfam01037 383629006064 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 383629006065 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 383629006066 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 383629006067 NAD binding site [chemical binding]; other site 383629006068 Phe binding site; other site 383629006069 YrhK-like protein; Region: YrhK; pfam14145 383629006070 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629006071 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629006072 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 383629006073 S-adenosylmethionine binding site [chemical binding]; other site 383629006074 Transcriptional regulators [Transcription]; Region: MarR; COG1846 383629006075 MarR family; Region: MarR_2; pfam12802 383629006076 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 383629006077 Found in ATP-dependent protease La (LON); Region: LON; smart00464 383629006078 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 383629006079 Walker A motif; other site 383629006080 ATP binding site [chemical binding]; other site 383629006081 Walker B motif; other site 383629006082 arginine finger; other site 383629006083 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 383629006084 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 383629006085 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 383629006086 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 383629006087 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 383629006088 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 383629006089 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 383629006090 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 383629006091 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 383629006092 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 383629006093 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 383629006094 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 383629006095 active site 383629006096 catalytic site [active] 383629006097 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 383629006098 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 383629006099 triosephosphate isomerase; Provisional; Region: PRK14565 383629006100 substrate binding site [chemical binding]; other site 383629006101 dimer interface [polypeptide binding]; other site 383629006102 catalytic triad [active] 383629006103 DctM-like transporters; Region: DctM; pfam06808 383629006104 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 383629006105 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 383629006106 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 383629006107 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 383629006108 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 383629006109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629006110 active site 383629006111 phosphorylation site [posttranslational modification] 383629006112 intermolecular recognition site; other site 383629006113 dimerization interface [polypeptide binding]; other site 383629006114 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 383629006115 Walker A motif; other site 383629006116 ATP binding site [chemical binding]; other site 383629006117 Walker B motif; other site 383629006118 arginine finger; other site 383629006119 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 383629006120 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 383629006121 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 383629006122 dimer interface [polypeptide binding]; other site 383629006123 phosphorylation site [posttranslational modification] 383629006124 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 383629006125 ATP binding site [chemical binding]; other site 383629006126 Mg2+ binding site [ion binding]; other site 383629006127 G-X-G motif; other site 383629006128 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 383629006129 Cytochrome P450; Region: p450; cl12078 383629006130 sugar efflux transporter; Region: 2A0120; TIGR00899 383629006131 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629006132 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 383629006133 putative DNA binding site [nucleotide binding]; other site 383629006134 putative Zn2+ binding site [ion binding]; other site 383629006135 AsnC family; Region: AsnC_trans_reg; pfam01037 383629006136 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 383629006137 active site 383629006138 SAM binding site [chemical binding]; other site 383629006139 homodimer interface [polypeptide binding]; other site 383629006140 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 383629006141 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 383629006142 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 383629006143 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 383629006144 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 383629006145 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 383629006146 Active Sites [active] 383629006147 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 383629006148 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 383629006149 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 383629006150 FAD binding pocket [chemical binding]; other site 383629006151 FAD binding motif [chemical binding]; other site 383629006152 phosphate binding motif [ion binding]; other site 383629006153 beta-alpha-beta structure motif; other site 383629006154 NAD binding pocket [chemical binding]; other site 383629006155 YodA lipocalin-like domain; Region: YodA; pfam09223 383629006156 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 383629006157 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 383629006158 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 383629006159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629006160 putative CheW interface [polypeptide binding]; other site 383629006161 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 383629006162 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 383629006163 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 383629006164 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 383629006165 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 383629006166 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 383629006167 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 383629006168 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 383629006169 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 383629006170 putative MPT binding site; other site 383629006171 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 383629006172 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 383629006173 XdhC Rossmann domain; Region: XdhC_C; pfam13478 383629006174 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 383629006175 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 383629006176 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 383629006177 carbamoyl-phosphate synthase (glutamine-hydrolyzing); Region: PLN02771 383629006178 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 383629006179 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 383629006180 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 383629006181 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 383629006182 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 383629006183 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 383629006184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629006185 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_10; cd07251 383629006186 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 383629006187 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 383629006188 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 383629006189 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 383629006190 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 383629006191 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 383629006192 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 383629006193 active site 383629006194 dimer interface [polypeptide binding]; other site 383629006195 motif 1; other site 383629006196 motif 2; other site 383629006197 motif 3; other site 383629006198 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 383629006199 anticodon binding site; other site 383629006200 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 383629006201 hypothetical protein; Provisional; Region: PRK05409 383629006202 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 383629006203 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 383629006204 ArsC family; Region: ArsC; pfam03960 383629006205 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 383629006206 DNA-binding site [nucleotide binding]; DNA binding site 383629006207 RNA-binding motif; other site 383629006208 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629006209 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 383629006210 NAD(P) binding site [chemical binding]; other site 383629006211 catalytic residues [active] 383629006212 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 383629006213 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 383629006214 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 383629006215 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 383629006216 nudix motif; other site 383629006217 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 383629006218 Amino acid synthesis; Region: AA_synth; pfam06684 383629006219 Transcriptional regulators [Transcription]; Region: GntR; COG1802 383629006220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629006221 DNA-binding site [nucleotide binding]; DNA binding site 383629006222 FCD domain; Region: FCD; pfam07729 383629006223 Uncharacterized conserved protein [Function unknown]; Region: COG5470 383629006224 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 383629006225 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 383629006226 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629006227 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629006228 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 383629006229 active site 383629006230 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 383629006231 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 383629006232 folate binding site [chemical binding]; other site 383629006233 NADP+ binding site [chemical binding]; other site 383629006234 thymidylate synthase; Reviewed; Region: thyA; PRK01827 383629006235 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 383629006236 dimerization interface [polypeptide binding]; other site 383629006237 active site 383629006238 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 383629006239 dimer interface [polypeptide binding]; other site 383629006240 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629006241 active site 383629006242 metal binding site [ion binding]; metal-binding site 383629006243 glutathione binding site [chemical binding]; other site 383629006244 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 383629006245 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 383629006246 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 383629006247 sequence-specific DNA binding site [nucleotide binding]; other site 383629006248 salt bridge; other site 383629006249 aspartate aminotransferase; Provisional; Region: PRK05764 383629006250 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 383629006251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629006252 homodimer interface [polypeptide binding]; other site 383629006253 catalytic residue [active] 383629006254 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 383629006255 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 383629006256 putative NAD(P) binding site [chemical binding]; other site 383629006257 homodimer interface [polypeptide binding]; other site 383629006258 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 383629006259 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 383629006260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629006261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629006262 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 383629006263 dimerization interface [polypeptide binding]; other site 383629006264 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 383629006265 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 383629006266 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 383629006267 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 383629006268 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629006269 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629006270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629006271 Coenzyme A binding pocket [chemical binding]; other site 383629006272 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 383629006273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629006274 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 383629006275 dimerization interface [polypeptide binding]; other site 383629006276 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 383629006277 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 383629006278 dimer interface [polypeptide binding]; other site 383629006279 active site 383629006280 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629006281 substrate binding site [chemical binding]; other site 383629006282 catalytic residue [active] 383629006283 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 383629006284 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 383629006285 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 383629006286 active site 383629006287 catalytic residues [active] 383629006288 DNA binding site [nucleotide binding] 383629006289 Int/Topo IB signature motif; other site 383629006290 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 383629006291 putative efflux protein, MATE family; Region: matE; TIGR00797 383629006292 cation binding site [ion binding]; other site 383629006293 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 383629006294 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 383629006295 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 383629006296 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 383629006297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629006298 catalytic residue [active] 383629006299 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 383629006300 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 383629006301 Mg2+ binding site [ion binding]; other site 383629006302 G-X-G motif; other site 383629006303 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 383629006304 anchoring element; other site 383629006305 dimer interface [polypeptide binding]; other site 383629006306 ATP binding site [chemical binding]; other site 383629006307 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 383629006308 active site 383629006309 metal binding site [ion binding]; metal-binding site 383629006310 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 383629006311 HEPN domain; Region: HEPN; cl00824 383629006312 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 383629006313 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 383629006314 putative [4Fe-4S] binding site [ion binding]; other site 383629006315 putative molybdopterin cofactor binding site [chemical binding]; other site 383629006316 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 383629006317 molybdopterin cofactor binding site; other site 383629006318 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 383629006319 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 383629006320 Walker A/P-loop; other site 383629006321 ATP binding site [chemical binding]; other site 383629006322 Q-loop/lid; other site 383629006323 ABC transporter signature motif; other site 383629006324 Walker B; other site 383629006325 D-loop; other site 383629006326 H-loop/switch region; other site 383629006327 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 383629006328 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 383629006329 FtsX-like permease family; Region: FtsX; pfam02687 383629006330 prolyl-tRNA synthetase; Provisional; Region: PRK12325 383629006331 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 383629006332 dimer interface [polypeptide binding]; other site 383629006333 motif 1; other site 383629006334 active site 383629006335 motif 2; other site 383629006336 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 383629006337 active site 383629006338 motif 3; other site 383629006339 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 383629006340 anticodon binding site; other site 383629006341 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 383629006342 Domain of unknown function DUF20; Region: UPF0118; pfam01594 383629006343 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 383629006344 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 383629006345 exopolyphosphatase; Region: exo_poly_only; TIGR03706 383629006346 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 383629006347 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 383629006348 putative catalytic site [active] 383629006349 putative metal binding site [ion binding]; other site 383629006350 putative phosphate binding site [ion binding]; other site 383629006351 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 383629006352 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 383629006353 putative metal binding site [ion binding]; other site 383629006354 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 383629006355 HSP70 interaction site [polypeptide binding]; other site 383629006356 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 383629006357 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 383629006358 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 383629006359 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 383629006360 active site 383629006361 substrate binding site [chemical binding]; other site 383629006362 coenzyme B12 binding site [chemical binding]; other site 383629006363 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 383629006364 B12 binding site [chemical binding]; other site 383629006365 cobalt ligand [ion binding]; other site 383629006366 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 383629006367 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 383629006368 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 383629006369 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 383629006370 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 383629006371 carboxyltransferase (CT) interaction site; other site 383629006372 biotinylation site [posttranslational modification]; other site 383629006373 Src Homology 3 domain superfamily; Region: SH3; cl17036 383629006374 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 383629006375 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 383629006376 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 383629006377 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 383629006378 active site 383629006379 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629006380 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 383629006381 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 383629006382 putative substrate translocation pore; other site 383629006383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629006384 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 383629006385 non-specific DNA binding site [nucleotide binding]; other site 383629006386 salt bridge; other site 383629006387 sequence-specific DNA binding site [nucleotide binding]; other site 383629006388 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 383629006389 Domain of unknown function (DUF955); Region: DUF955; pfam06114 383629006390 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 383629006391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 383629006392 choline dehydrogenase; Validated; Region: PRK02106 383629006393 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629006394 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 383629006395 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 383629006396 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 383629006397 NAD(P) binding site [chemical binding]; other site 383629006398 catalytic residues [active] 383629006399 Sulfatase; Region: Sulfatase; cl17466 383629006400 choline-sulfatase; Region: chol_sulfatase; TIGR03417 383629006401 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 383629006402 BCCT family transporter; Region: BCCT; cl00569 383629006403 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 383629006404 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 383629006405 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 383629006406 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629006407 EamA-like transporter family; Region: EamA; pfam00892 383629006408 Lysine efflux permease [General function prediction only]; Region: COG1279 383629006409 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 383629006410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629006411 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 383629006412 dimerization interface [polypeptide binding]; other site 383629006413 Predicted periplasmic protein [Function unknown]; Region: COG3904 383629006414 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 383629006415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629006416 Coenzyme A binding pocket [chemical binding]; other site 383629006417 hypothetical protein; Validated; Region: PRK00110 383629006418 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 383629006419 transmembrane helices; other site 383629006420 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 383629006421 TrkA-C domain; Region: TrkA_C; pfam02080 383629006422 TrkA-C domain; Region: TrkA_C; pfam02080 383629006423 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 383629006424 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 383629006425 FAD binding domain; Region: FAD_binding_2; pfam00890 383629006426 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 383629006427 transmembrane helices; other site 383629006428 TrkA-C domain; Region: TrkA_C; pfam02080 383629006429 TrkA-C domain; Region: TrkA_C; pfam02080 383629006430 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 383629006431 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 383629006432 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 383629006433 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 383629006434 putative active site [active] 383629006435 metal binding site [ion binding]; metal-binding site 383629006436 homodimer binding site [polypeptide binding]; other site 383629006437 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 383629006438 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 383629006439 MgtE intracellular N domain; Region: MgtE_N; smart00924 383629006440 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 383629006441 Divalent cation transporter; Region: MgtE; pfam01769 383629006442 guanine deaminase; Provisional; Region: PRK09228 383629006443 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 383629006444 active site 383629006445 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 383629006446 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 383629006447 active site 383629006448 putative substrate binding pocket [chemical binding]; other site 383629006449 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 383629006450 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 383629006451 active site 383629006452 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629006453 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 383629006454 non-specific DNA binding site [nucleotide binding]; other site 383629006455 salt bridge; other site 383629006456 sequence-specific DNA binding site [nucleotide binding]; other site 383629006457 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 383629006458 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 383629006459 NAD(P) binding site [chemical binding]; other site 383629006460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629006461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629006462 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 383629006463 dimerization interface [polypeptide binding]; other site 383629006464 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 383629006465 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 383629006466 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 383629006467 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 383629006468 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629006469 Coenzyme A binding pocket [chemical binding]; other site 383629006470 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 383629006471 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 383629006472 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 383629006473 amidase catalytic site [active] 383629006474 Zn binding residues [ion binding]; other site 383629006475 substrate binding site [chemical binding]; other site 383629006476 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 383629006477 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 383629006478 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 383629006479 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 383629006480 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 383629006481 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 383629006482 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 383629006483 nucleoside/Zn binding site; other site 383629006484 dimer interface [polypeptide binding]; other site 383629006485 catalytic motif [active] 383629006486 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 383629006487 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 383629006488 RNA binding surface [nucleotide binding]; other site 383629006489 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 383629006490 active site 383629006491 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 383629006492 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 383629006493 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 383629006494 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 383629006495 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 383629006496 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 383629006497 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 383629006498 putative FMN binding site [chemical binding]; other site 383629006499 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 383629006500 putative active site [active] 383629006501 dimerization interface [polypeptide binding]; other site 383629006502 putative tRNAtyr binding site [nucleotide binding]; other site 383629006503 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629006504 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 383629006505 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629006506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629006507 dimer interface [polypeptide binding]; other site 383629006508 conserved gate region; other site 383629006509 ABC-ATPase subunit interface; other site 383629006510 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 383629006511 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 383629006512 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629006513 dimer interface [polypeptide binding]; other site 383629006514 conserved gate region; other site 383629006515 ABC-ATPase subunit interface; other site 383629006516 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 383629006517 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629006518 Walker A/P-loop; other site 383629006519 ATP binding site [chemical binding]; other site 383629006520 Q-loop/lid; other site 383629006521 ABC transporter signature motif; other site 383629006522 Walker B; other site 383629006523 D-loop; other site 383629006524 H-loop/switch region; other site 383629006525 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629006526 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629006527 Walker A/P-loop; other site 383629006528 ATP binding site [chemical binding]; other site 383629006529 Q-loop/lid; other site 383629006530 ABC transporter signature motif; other site 383629006531 Walker B; other site 383629006532 D-loop; other site 383629006533 H-loop/switch region; other site 383629006534 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629006535 Uncharacterized conserved protein [Function unknown]; Region: COG3379 383629006536 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 383629006537 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 383629006538 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 383629006539 substrate binding pocket [chemical binding]; other site 383629006540 AMP-binding domain protein; Validated; Region: PRK07529 383629006541 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629006542 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 383629006543 acyl-activating enzyme (AAE) consensus motif; other site 383629006544 putative AMP binding site [chemical binding]; other site 383629006545 putative active site [active] 383629006546 putative CoA binding site [chemical binding]; other site 383629006547 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 383629006548 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629006549 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 383629006550 Walker A/P-loop; other site 383629006551 ATP binding site [chemical binding]; other site 383629006552 Q-loop/lid; other site 383629006553 ABC transporter signature motif; other site 383629006554 Walker B; other site 383629006555 D-loop; other site 383629006556 H-loop/switch region; other site 383629006557 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 383629006558 putative hydrophobic ligand binding site [chemical binding]; other site 383629006559 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629006560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629006561 active site 383629006562 phosphorylation site [posttranslational modification] 383629006563 intermolecular recognition site; other site 383629006564 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 383629006565 DNA binding residues [nucleotide binding] 383629006566 dimerization interface [polypeptide binding]; other site 383629006567 Uncharacterized conserved protein [Function unknown]; Region: COG3287 383629006568 FIST N domain; Region: FIST; pfam08495 383629006569 FIST C domain; Region: FIST_C; pfam10442 383629006570 PAS fold; Region: PAS_7; pfam12860 383629006571 PAS fold; Region: PAS_7; pfam12860 383629006572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629006573 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 383629006574 dimer interface [polypeptide binding]; other site 383629006575 phosphorylation site [posttranslational modification] 383629006576 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 383629006577 ATP binding site [chemical binding]; other site 383629006578 Mg2+ binding site [ion binding]; other site 383629006579 G-X-G motif; other site 383629006580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 383629006581 active site 383629006582 phosphorylation site [posttranslational modification] 383629006583 intermolecular recognition site; other site 383629006584 dimerization interface [polypeptide binding]; other site 383629006585 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 383629006586 putative active site [active] 383629006587 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 383629006588 putative active site [active] 383629006589 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 383629006590 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 383629006591 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 383629006592 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 383629006593 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 383629006594 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 383629006595 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 383629006596 Walker A/P-loop; other site 383629006597 ATP binding site [chemical binding]; other site 383629006598 Q-loop/lid; other site 383629006599 ABC transporter signature motif; other site 383629006600 Walker B; other site 383629006601 D-loop; other site 383629006602 H-loop/switch region; other site 383629006603 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629006604 dimer interface [polypeptide binding]; other site 383629006605 conserved gate region; other site 383629006606 putative PBP binding loops; other site 383629006607 ABC-ATPase subunit interface; other site 383629006608 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629006609 dimer interface [polypeptide binding]; other site 383629006610 conserved gate region; other site 383629006611 putative PBP binding loops; other site 383629006612 ABC-ATPase subunit interface; other site 383629006613 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 383629006614 Phosphotransferase enzyme family; Region: APH; pfam01636 383629006615 active site 383629006616 ATP binding site [chemical binding]; other site 383629006617 substrate binding site [chemical binding]; other site 383629006618 dimer interface [polypeptide binding]; other site 383629006619 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629006620 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629006621 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629006622 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629006623 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629006624 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629006625 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 383629006626 conserved cys residue [active] 383629006627 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 383629006628 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 383629006629 active site 383629006630 N-formylglutamate amidohydrolase; Region: FGase; cl01522 383629006631 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 383629006632 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629006633 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 383629006634 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 383629006635 NAD(P) binding site [chemical binding]; other site 383629006636 catalytic residues [active] 383629006637 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 383629006638 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 383629006639 putative active site [active] 383629006640 metal binding site [ion binding]; metal-binding site 383629006641 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 383629006642 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 383629006643 active site 383629006644 ATP binding site [chemical binding]; other site 383629006645 Phosphotransferase enzyme family; Region: APH; pfam01636 383629006646 substrate binding site [chemical binding]; other site 383629006647 dimer interface [polypeptide binding]; other site 383629006648 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629006649 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629006650 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629006651 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629006652 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629006653 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 383629006654 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 383629006655 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 383629006656 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629006657 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629006658 2-aminobenzoate-CoA ligase (ABCL); Region: ABCL; cd05958 383629006659 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 383629006660 putative dimer interface [polypeptide binding]; other site 383629006661 acyl-activating enzyme (AAE) consensus motif; other site 383629006662 putative active site [active] 383629006663 putative AMP binding site [chemical binding]; other site 383629006664 putative CoA binding site [chemical binding]; other site 383629006665 putative chemical substrate binding site [chemical binding]; other site 383629006666 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629006667 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629006668 active site 383629006669 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 383629006670 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 383629006671 substrate binding site [chemical binding]; other site 383629006672 oxyanion hole (OAH) forming residues; other site 383629006673 trimer interface [polypeptide binding]; other site 383629006674 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629006675 MarR family; Region: MarR; pfam01047 383629006676 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 383629006677 classical (c) SDRs; Region: SDR_c; cd05233 383629006678 NAD(P) binding site [chemical binding]; other site 383629006679 active site 383629006680 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 383629006681 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 383629006682 active site 383629006683 FMN binding site [chemical binding]; other site 383629006684 substrate binding site [chemical binding]; other site 383629006685 homotetramer interface [polypeptide binding]; other site 383629006686 catalytic residue [active] 383629006687 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 383629006688 GAF domain; Region: GAF; pfam01590 383629006689 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 383629006690 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 383629006691 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 383629006692 aspartate kinase; Reviewed; Region: PRK06635 383629006693 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 383629006694 putative nucleotide binding site [chemical binding]; other site 383629006695 putative catalytic residues [active] 383629006696 putative Mg ion binding site [ion binding]; other site 383629006697 putative aspartate binding site [chemical binding]; other site 383629006698 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 383629006699 putative allosteric regulatory site; other site 383629006700 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 383629006701 putative allosteric regulatory residue; other site 383629006702 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 383629006703 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 383629006704 putative GTP cyclohydrolase; Provisional; Region: PRK13674 383629006705 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 383629006706 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 383629006707 homodimer interface [polypeptide binding]; other site 383629006708 substrate-cofactor binding pocket; other site 383629006709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629006710 catalytic residue [active] 383629006711 Intracellular septation protein A; Region: IspA; pfam04279 383629006712 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 383629006713 EamA-like transporter family; Region: EamA; pfam00892 383629006714 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 383629006715 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 383629006716 P loop; other site 383629006717 GTP binding site [chemical binding]; other site 383629006718 YhhN-like protein; Region: YhhN; cl01505 383629006719 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 383629006720 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 383629006721 generic binding surface II; other site 383629006722 generic binding surface I; other site 383629006723 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 383629006724 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 383629006725 ATP-grasp domain; Region: ATP-grasp_4; cl17255 383629006726 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 383629006727 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 383629006728 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 383629006729 PAS domain; Region: PAS_9; pfam13426 383629006730 putative active site [active] 383629006731 heme pocket [chemical binding]; other site 383629006732 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629006733 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 383629006734 DNA binding residues [nucleotide binding] 383629006735 dimerization interface [polypeptide binding]; other site 383629006736 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 383629006737 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 383629006738 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 383629006739 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 383629006740 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 383629006741 Family description; Region: VCBS; pfam13517 383629006742 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 383629006743 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 383629006744 catalytic loop [active] 383629006745 iron binding site [ion binding]; other site 383629006746 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629006747 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629006748 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 383629006749 ligand binding site [chemical binding]; other site 383629006750 flexible hinge region; other site 383629006751 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 383629006752 putative switch regulator; other site 383629006753 non-specific DNA interactions [nucleotide binding]; other site 383629006754 DNA binding site [nucleotide binding] 383629006755 sequence specific DNA binding site [nucleotide binding]; other site 383629006756 putative cAMP binding site [chemical binding]; other site 383629006757 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 383629006758 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 383629006759 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 383629006760 protein binding site [polypeptide binding]; other site 383629006761 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 383629006762 protein binding site [polypeptide binding]; other site 383629006763 FtsH protease regulator HflC; Provisional; Region: PRK11029 383629006764 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 383629006765 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 383629006766 HflK protein; Region: hflK; TIGR01933 383629006767 glutathione reductase; Validated; Region: PRK06116 383629006768 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629006769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629006770 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 383629006771 AAA domain; Region: AAA_33; pfam13671 383629006772 AAA domain; Region: AAA_17; pfam13207 383629006773 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 383629006774 tetramer (dimer of dimers) interface [polypeptide binding]; other site 383629006775 active site 383629006776 dimer interface [polypeptide binding]; other site 383629006777 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 383629006778 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 383629006779 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629006780 C-terminal domain interface [polypeptide binding]; other site 383629006781 GSH binding site (G-site) [chemical binding]; other site 383629006782 dimer interface [polypeptide binding]; other site 383629006783 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 383629006784 N-terminal domain interface [polypeptide binding]; other site 383629006785 dimer interface [polypeptide binding]; other site 383629006786 substrate binding pocket (H-site) [chemical binding]; other site 383629006787 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 383629006788 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 383629006789 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 383629006790 EamA-like transporter family; Region: EamA; pfam00892 383629006791 Thiamine pyrophosphokinase; Region: TPK; cd07995 383629006792 active site 383629006793 thiamine binding site [chemical binding]; other site 383629006794 dimerization interface [polypeptide binding]; other site 383629006795 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 383629006796 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 383629006797 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 383629006798 GDP-binding site [chemical binding]; other site 383629006799 ACT binding site; other site 383629006800 IMP binding site; other site 383629006801 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 383629006802 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629006803 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 383629006804 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629006805 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 383629006806 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 383629006807 putative switch regulator; other site 383629006808 non-specific DNA interactions [nucleotide binding]; other site 383629006809 DNA binding site [nucleotide binding] 383629006810 sequence specific DNA binding site [nucleotide binding]; other site 383629006811 putative cAMP binding site [chemical binding]; other site 383629006812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629006813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629006814 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629006815 putative effector binding pocket; other site 383629006816 dimerization interface [polypeptide binding]; other site 383629006817 Putative mono-oxygenase ydhR; Region: ydhR; pfam08803 383629006818 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 383629006819 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 383629006820 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 383629006821 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 383629006822 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 383629006823 CTP synthetase; Validated; Region: pyrG; PRK05380 383629006824 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 383629006825 Catalytic site [active] 383629006826 active site 383629006827 UTP binding site [chemical binding]; other site 383629006828 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 383629006829 active site 383629006830 putative oxyanion hole; other site 383629006831 catalytic triad [active] 383629006832 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 383629006833 catalytic residue [active] 383629006834 enoyl-CoA hydratase; Provisional; Region: PRK07509 383629006835 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 383629006836 substrate binding site [chemical binding]; other site 383629006837 oxyanion hole (OAH) forming residues; other site 383629006838 trimer interface [polypeptide binding]; other site 383629006839 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 383629006840 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 383629006841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629006842 homodimer interface [polypeptide binding]; other site 383629006843 catalytic residue [active] 383629006844 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 383629006845 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629006846 catalytic residue [active] 383629006847 cell division protein DamX; Validated; Region: PRK10905 383629006848 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 383629006849 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629006850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629006851 Walker A/P-loop; other site 383629006852 ATP binding site [chemical binding]; other site 383629006853 Q-loop/lid; other site 383629006854 ABC transporter signature motif; other site 383629006855 Walker B; other site 383629006856 D-loop; other site 383629006857 H-loop/switch region; other site 383629006858 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 383629006859 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 383629006860 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629006861 elongation factor P; Validated; Region: PRK00529 383629006862 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 383629006863 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 383629006864 RNA binding site [nucleotide binding]; other site 383629006865 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 383629006866 RNA binding site [nucleotide binding]; other site 383629006867 cobyric acid synthase; Provisional; Region: PRK00784 383629006868 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 383629006869 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 383629006870 catalytic triad [active] 383629006871 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 383629006872 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 383629006873 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 383629006874 S-adenosylmethionine binding site [chemical binding]; other site 383629006875 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 383629006876 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 383629006877 PhnA protein; Region: PhnA; pfam03831 383629006878 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 383629006879 Entericidin EcnA/B family; Region: Entericidin; cl02322 383629006880 GTP-binding protein LepA; Provisional; Region: PRK05433 383629006881 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 383629006882 G1 box; other site 383629006883 putative GEF interaction site [polypeptide binding]; other site 383629006884 GTP/Mg2+ binding site [chemical binding]; other site 383629006885 Switch I region; other site 383629006886 G2 box; other site 383629006887 G3 box; other site 383629006888 Switch II region; other site 383629006889 G4 box; other site 383629006890 G5 box; other site 383629006891 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 383629006892 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 383629006893 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 383629006894 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629006895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629006896 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 383629006897 dimerization interface [polypeptide binding]; other site 383629006898 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 383629006899 Low molecular weight phosphatase family; Region: LMWPc; cd00115 383629006900 active site 383629006901 Protein of unknown function (DUF461); Region: DUF461; pfam04314 383629006902 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 383629006903 membrane ATPase/protein kinase; Provisional; Region: PRK09435 383629006904 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 383629006905 Walker A; other site 383629006906 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 383629006907 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 383629006908 ATP binding site [chemical binding]; other site 383629006909 putative Mg++ binding site [ion binding]; other site 383629006910 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 383629006911 Helicase associated domain (HA2); Region: HA2; pfam04408 383629006912 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 383629006913 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 383629006914 nudix motif; other site 383629006915 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 383629006916 Phosphate transporter family; Region: PHO4; pfam01384 383629006917 ornithine carbamoyltransferase; Provisional; Region: PRK00779 383629006918 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 383629006919 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 383629006920 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 383629006921 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 383629006922 inhibitor-cofactor binding pocket; inhibition site 383629006923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629006924 catalytic residue [active] 383629006925 EamA-like transporter family; Region: EamA; pfam00892 383629006926 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629006927 ABC-2 type transporter; Region: ABC2_membrane; cl17235 383629006928 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 383629006929 GcrA cell cycle regulator; Region: GcrA; cl11564 383629006930 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 383629006931 putative S-transferase; Provisional; Region: PRK11752 383629006932 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 383629006933 C-terminal domain interface [polypeptide binding]; other site 383629006934 GSH binding site (G-site) [chemical binding]; other site 383629006935 dimer interface [polypeptide binding]; other site 383629006936 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 383629006937 dimer interface [polypeptide binding]; other site 383629006938 N-terminal domain interface [polypeptide binding]; other site 383629006939 active site 383629006940 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 383629006941 ligand binding site [chemical binding]; other site 383629006942 active site 383629006943 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 383629006944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629006945 Walker A/P-loop; other site 383629006946 ATP binding site [chemical binding]; other site 383629006947 Q-loop/lid; other site 383629006948 ABC transporter signature motif; other site 383629006949 Walker B; other site 383629006950 D-loop; other site 383629006951 H-loop/switch region; other site 383629006952 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 383629006953 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 383629006954 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 383629006955 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 383629006956 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 383629006957 active site 383629006958 substrate binding site [chemical binding]; other site 383629006959 metal binding site [ion binding]; metal-binding site 383629006960 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 383629006961 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 383629006962 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 383629006963 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 383629006964 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 383629006965 FeS/SAM binding site; other site 383629006966 Protein of unknown function, DUF393; Region: DUF393; pfam04134 383629006967 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 383629006968 Peptidase family M48; Region: Peptidase_M48; cl12018 383629006969 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 383629006970 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 383629006971 FMN binding site [chemical binding]; other site 383629006972 dimer interface [polypeptide binding]; other site 383629006973 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 383629006974 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 383629006975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629006976 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 383629006977 dimer interface [polypeptide binding]; other site 383629006978 substrate binding site [chemical binding]; other site 383629006979 metal binding site [ion binding]; metal-binding site 383629006980 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629006981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629006982 active site 383629006983 phosphorylation site [posttranslational modification] 383629006984 intermolecular recognition site; other site 383629006985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 383629006986 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 383629006987 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 383629006988 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 383629006989 dimer interface [polypeptide binding]; other site 383629006990 anticodon binding site; other site 383629006991 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 383629006992 motif 1; other site 383629006993 dimer interface [polypeptide binding]; other site 383629006994 active site 383629006995 motif 2; other site 383629006996 GAD domain; Region: GAD; pfam02938 383629006997 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 383629006998 active site 383629006999 motif 3; other site 383629007000 hypothetical protein; Provisional; Region: PRK07546 383629007001 substrate-cofactor binding pocket; other site 383629007002 homodimer interface [polypeptide binding]; other site 383629007003 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 383629007004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629007005 catalytic residue [active] 383629007006 aminodeoxychorismate synthase; Provisional; Region: PRK07508 383629007007 chorismate binding enzyme; Region: Chorismate_bind; cl10555 383629007008 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 383629007009 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 383629007010 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 383629007011 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 383629007012 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 383629007013 ATP-grasp domain; Region: ATP-grasp_4; cl17255 383629007014 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 383629007015 IMP binding site; other site 383629007016 dimer interface [polypeptide binding]; other site 383629007017 partial ornithine binding site; other site 383629007018 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 383629007019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629007020 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 383629007021 dimerization interface [polypeptide binding]; other site 383629007022 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 383629007023 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 383629007024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629007025 catalytic residue [active] 383629007026 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 383629007027 active site 383629007028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 383629007029 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 383629007030 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 383629007031 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629007032 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629007033 MarR family; Region: MarR; pfam01047 383629007034 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 383629007035 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 383629007036 dimer interface [polypeptide binding]; other site 383629007037 active site 383629007038 CoA binding pocket [chemical binding]; other site 383629007039 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 383629007040 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 383629007041 thymidine kinase; Provisional; Region: PRK04296 383629007042 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 383629007043 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 383629007044 dimerization interface [polypeptide binding]; other site 383629007045 ligand binding site [chemical binding]; other site 383629007046 NADP binding site [chemical binding]; other site 383629007047 catalytic site [active] 383629007048 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 383629007049 dimer interface [polypeptide binding]; other site 383629007050 putative tRNA-binding site [nucleotide binding]; other site 383629007051 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 383629007052 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 383629007053 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 383629007054 Membrane fusogenic activity; Region: BMFP; pfam04380 383629007055 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 383629007056 Uncharacterized conserved protein [Function unknown]; Region: COG1565 383629007057 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 383629007058 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 383629007059 Hint domain; Region: Hint_2; pfam13403 383629007060 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629007061 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 383629007062 putative DNA binding site [nucleotide binding]; other site 383629007063 putative Zn2+ binding site [ion binding]; other site 383629007064 AsnC family; Region: AsnC_trans_reg; pfam01037 383629007065 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 383629007066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629007067 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629007068 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 383629007069 Transcriptional regulators [Transcription]; Region: MarR; COG1846 383629007070 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 383629007071 ATP-sulfurylase; Region: ATPS; cd00517 383629007072 active site 383629007073 HXXH motif; other site 383629007074 flexible loop; other site 383629007075 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 383629007076 ligand-binding site [chemical binding]; other site 383629007077 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 383629007078 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 383629007079 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 383629007080 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 383629007081 putative dimer interface [polypeptide binding]; other site 383629007082 AIR carboxylase; Region: AIRC; pfam00731 383629007083 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 383629007084 ATP-grasp domain; Region: ATP-grasp; pfam02222 383629007085 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 383629007086 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 383629007087 active site 383629007088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 383629007089 HNH endonuclease; Region: HNH_2; pfam13391 383629007090 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 383629007091 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 383629007092 ring oligomerisation interface [polypeptide binding]; other site 383629007093 ATP/Mg binding site [chemical binding]; other site 383629007094 stacking interactions; other site 383629007095 hinge regions; other site 383629007096 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 383629007097 oligomerisation interface [polypeptide binding]; other site 383629007098 mobile loop; other site 383629007099 roof hairpin; other site 383629007100 Uncharacterized conserved protein (DUF2161); Region: DUF2161; pfam09929 383629007101 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 383629007102 DHH family; Region: DHH; pfam01368 383629007103 DHHA2 domain; Region: DHHA2; pfam02833 383629007104 HAMP domain; Region: HAMP; pfam00672 383629007105 dimerization interface [polypeptide binding]; other site 383629007106 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629007107 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629007108 dimer interface [polypeptide binding]; other site 383629007109 putative CheW interface [polypeptide binding]; other site 383629007110 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 383629007111 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 383629007112 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 383629007113 (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. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 383629007114 dimer interaction site [polypeptide binding]; other site 383629007115 substrate-binding tunnel; other site 383629007116 active site 383629007117 catalytic site [active] 383629007118 substrate binding site [chemical binding]; other site 383629007119 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 383629007120 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 383629007121 active site 383629007122 Riboflavin kinase; Region: Flavokinase; pfam01687 383629007123 hypothetical protein; Provisional; Region: PRK05170 383629007124 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 383629007125 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 383629007126 tetramer interface [polypeptide binding]; other site 383629007127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629007128 catalytic residue [active] 383629007129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629007130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629007131 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 383629007132 dimerization interface [polypeptide binding]; other site 383629007133 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 383629007134 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 383629007135 catalytic site [active] 383629007136 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 383629007137 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 383629007138 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629007139 active site 383629007140 Uncharacterized conserved protein [Function unknown]; Region: COG3791 383629007141 H-type lectin domain; Region: H_lectin; pfam09458 383629007142 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 383629007143 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 383629007144 gamma subunit interface [polypeptide binding]; other site 383629007145 epsilon subunit interface [polypeptide binding]; other site 383629007146 LBP interface [polypeptide binding]; other site 383629007147 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 383629007148 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 383629007149 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 383629007150 alpha subunit interaction interface [polypeptide binding]; other site 383629007151 Walker A motif; other site 383629007152 ATP binding site [chemical binding]; other site 383629007153 Walker B motif; other site 383629007154 inhibitor binding site; inhibition site 383629007155 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 383629007156 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 383629007157 core domain interface [polypeptide binding]; other site 383629007158 delta subunit interface [polypeptide binding]; other site 383629007159 epsilon subunit interface [polypeptide binding]; other site 383629007160 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 383629007161 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 383629007162 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 383629007163 beta subunit interaction interface [polypeptide binding]; other site 383629007164 Walker A motif; other site 383629007165 ATP binding site [chemical binding]; other site 383629007166 Walker B motif; other site 383629007167 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 383629007168 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 383629007169 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 383629007170 Methyltransferase domain; Region: Methyltransf_23; pfam13489 383629007171 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 383629007172 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 383629007173 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 383629007174 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 383629007175 Walker A motif; other site 383629007176 ATP binding site [chemical binding]; other site 383629007177 Walker B motif; other site 383629007178 arginine finger; other site 383629007179 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 383629007180 Walker A motif; other site 383629007181 ATP binding site [chemical binding]; other site 383629007182 Walker B motif; other site 383629007183 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 383629007184 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 383629007185 Peptidase family M23; Region: Peptidase_M23; pfam01551 383629007186 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 383629007187 hypothetical protein; Validated; Region: PRK09039 383629007188 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629007189 ligand binding site [chemical binding]; other site 383629007190 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 383629007191 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 383629007192 putative active site pocket [active] 383629007193 dimerization interface [polypeptide binding]; other site 383629007194 putative catalytic residue [active] 383629007195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 383629007196 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 383629007197 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 383629007198 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 383629007199 prephenate dehydrogenase; Validated; Region: PRK08507 383629007200 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 383629007201 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 383629007202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629007203 homodimer interface [polypeptide binding]; other site 383629007204 catalytic residue [active] 383629007205 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629007206 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 383629007207 AsnC family; Region: AsnC_trans_reg; pfam01037 383629007208 PA14 domain; Region: PA14; cl08459 383629007209 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 383629007210 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 383629007211 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 383629007212 RNA binding surface [nucleotide binding]; other site 383629007213 Hint domain; Region: Hint_2; pfam13403 383629007214 Cytochrome c2 [Energy production and conversion]; Region: COG3474 383629007215 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 383629007216 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 383629007217 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 383629007218 Cu(I) binding site [ion binding]; other site 383629007219 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 383629007220 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 383629007221 Putative water exit pathway; other site 383629007222 Binuclear center (active site) [active] 383629007223 K-pathway; other site 383629007224 Putative proton exit pathway; other site 383629007225 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 383629007226 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 383629007227 Transcriptional regulator; Region: Rrf2; cl17282 383629007228 Rrf2 family protein; Region: rrf2_super; TIGR00738 383629007229 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 383629007230 Cytochrome c; Region: Cytochrom_C; pfam00034 383629007231 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 383629007232 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 383629007233 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 383629007234 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 383629007235 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 383629007236 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 383629007237 Low-spin heme binding site [chemical binding]; other site 383629007238 Putative water exit pathway; other site 383629007239 Binuclear center (active site) [active] 383629007240 Putative proton exit pathway; other site 383629007241 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 383629007242 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 383629007243 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 383629007244 heme binding pocket [chemical binding]; other site 383629007245 Transcriptional regulators [Transcription]; Region: MarR; COG1846 383629007246 MarR family; Region: MarR_2; cl17246 383629007247 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 383629007248 heme binding pocket [chemical binding]; other site 383629007249 Transcriptional regulators [Transcription]; Region: MarR; COG1846 383629007250 MarR family; Region: MarR; pfam01047 383629007251 D-serine dehydratase; Provisional; Region: PRK02991 383629007252 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 383629007253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629007254 catalytic residue [active] 383629007255 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 383629007256 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 383629007257 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 383629007258 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 383629007259 tetramer interface [polypeptide binding]; other site 383629007260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629007261 catalytic residue [active] 383629007262 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 383629007263 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 383629007264 tetramer interface [polypeptide binding]; other site 383629007265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629007266 catalytic residue [active] 383629007267 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 383629007268 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 383629007269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629007270 catalytic residue [active] 383629007271 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629007272 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 383629007273 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629007274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007275 dimer interface [polypeptide binding]; other site 383629007276 conserved gate region; other site 383629007277 putative PBP binding loops; other site 383629007278 ABC-ATPase subunit interface; other site 383629007279 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 383629007280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007281 dimer interface [polypeptide binding]; other site 383629007282 conserved gate region; other site 383629007283 putative PBP binding loops; other site 383629007284 ABC-ATPase subunit interface; other site 383629007285 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 383629007286 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629007287 Walker A/P-loop; other site 383629007288 ATP binding site [chemical binding]; other site 383629007289 Q-loop/lid; other site 383629007290 ABC transporter signature motif; other site 383629007291 Walker B; other site 383629007292 D-loop; other site 383629007293 H-loop/switch region; other site 383629007294 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629007295 Walker A/P-loop; other site 383629007296 ATP binding site [chemical binding]; other site 383629007297 Q-loop/lid; other site 383629007298 ABC transporter signature motif; other site 383629007299 Walker B; other site 383629007300 D-loop; other site 383629007301 H-loop/switch region; other site 383629007302 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 383629007303 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 383629007304 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 383629007305 Walker A/P-loop; other site 383629007306 ATP binding site [chemical binding]; other site 383629007307 Q-loop/lid; other site 383629007308 ABC transporter signature motif; other site 383629007309 Walker B; other site 383629007310 D-loop; other site 383629007311 H-loop/switch region; other site 383629007312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007313 dimer interface [polypeptide binding]; other site 383629007314 conserved gate region; other site 383629007315 putative PBP binding loops; other site 383629007316 ABC-ATPase subunit interface; other site 383629007317 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 383629007318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007319 conserved gate region; other site 383629007320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007321 putative PBP binding loops; other site 383629007322 dimer interface [polypeptide binding]; other site 383629007323 ABC-ATPase subunit interface; other site 383629007324 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 383629007325 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 383629007326 substrate binding pocket [chemical binding]; other site 383629007327 membrane-bound complex binding site; other site 383629007328 hinge residues; other site 383629007329 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 383629007330 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 383629007331 dimerization interface [polypeptide binding]; other site 383629007332 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 383629007333 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 383629007334 acyl-activating enzyme (AAE) consensus motif; other site 383629007335 putative AMP binding site [chemical binding]; other site 383629007336 putative active site [active] 383629007337 putative CoA binding site [chemical binding]; other site 383629007338 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 383629007339 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 383629007340 FAD binding pocket [chemical binding]; other site 383629007341 FAD binding motif [chemical binding]; other site 383629007342 phosphate binding motif [ion binding]; other site 383629007343 beta-alpha-beta structure motif; other site 383629007344 NAD binding pocket [chemical binding]; other site 383629007345 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 383629007346 catalytic loop [active] 383629007347 iron binding site [ion binding]; other site 383629007348 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 383629007349 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629007350 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 383629007351 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 383629007352 active site 383629007353 FMN binding site [chemical binding]; other site 383629007354 2,4-decadienoyl-CoA binding site; other site 383629007355 catalytic residue [active] 383629007356 4Fe-4S cluster binding site [ion binding]; other site 383629007357 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629007358 bile acid transporter; Region: bass; TIGR00841 383629007359 Sodium Bile acid symporter family; Region: SBF; cl17470 383629007360 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629007361 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629007362 WHG domain; Region: WHG; pfam13305 383629007363 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 383629007364 MltA-interacting protein MipA; Region: MipA; cl01504 383629007365 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 383629007366 LytTr DNA-binding domain; Region: LytTR; smart00850 383629007367 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 383629007368 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 383629007369 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 383629007370 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 383629007371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629007372 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 383629007373 Integrase core domain; Region: rve_3; cl15866 383629007374 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 383629007375 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 383629007376 putative active site [active] 383629007377 putative FMN binding site [chemical binding]; other site 383629007378 putative substrate binding site [chemical binding]; other site 383629007379 putative catalytic residue [active] 383629007380 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629007381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629007382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629007383 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 383629007384 dimerization interface [polypeptide binding]; other site 383629007385 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 383629007386 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 383629007387 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 383629007388 catalytic loop [active] 383629007389 iron binding site [ion binding]; other site 383629007390 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 383629007391 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 383629007392 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 383629007393 [4Fe-4S] binding site [ion binding]; other site 383629007394 molybdopterin cofactor binding site; other site 383629007395 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 383629007396 molybdopterin cofactor binding site; other site 383629007397 NADH dehydrogenase subunit E; Validated; Region: PRK07539 383629007398 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 383629007399 putative dimer interface [polypeptide binding]; other site 383629007400 [2Fe-2S] cluster binding site [ion binding]; other site 383629007401 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 383629007402 SLBB domain; Region: SLBB; pfam10531 383629007403 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 383629007404 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 383629007405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629007406 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 383629007407 dimerization interface [polypeptide binding]; other site 383629007408 MarR family; Region: MarR_2; cl17246 383629007409 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 383629007410 dimerization interface [polypeptide binding]; other site 383629007411 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629007412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629007413 dimer interface [polypeptide binding]; other site 383629007414 putative CheW interface [polypeptide binding]; other site 383629007415 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 383629007416 S-adenosylmethionine binding site [chemical binding]; other site 383629007417 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 383629007418 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629007419 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629007420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629007421 Coenzyme A binding pocket [chemical binding]; other site 383629007422 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 383629007423 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 383629007424 intersubunit interface [polypeptide binding]; other site 383629007425 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 383629007426 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 383629007427 ABC-ATPase subunit interface; other site 383629007428 dimer interface [polypeptide binding]; other site 383629007429 putative PBP binding regions; other site 383629007430 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 383629007431 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 383629007432 ABC-ATPase subunit interface; other site 383629007433 dimer interface [polypeptide binding]; other site 383629007434 putative PBP binding regions; other site 383629007435 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 383629007436 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 383629007437 Walker A/P-loop; other site 383629007438 ATP binding site [chemical binding]; other site 383629007439 Q-loop/lid; other site 383629007440 ABC transporter signature motif; other site 383629007441 Walker B; other site 383629007442 D-loop; other site 383629007443 H-loop/switch region; other site 383629007444 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 383629007445 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 383629007446 FAD binding pocket [chemical binding]; other site 383629007447 FAD binding motif [chemical binding]; other site 383629007448 phosphate binding motif [ion binding]; other site 383629007449 NAD binding pocket [chemical binding]; other site 383629007450 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 383629007451 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 383629007452 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 383629007453 Gram-negative bacterial tonB protein; Region: TonB; cl10048 383629007454 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 383629007455 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 383629007456 N-terminal plug; other site 383629007457 ligand-binding site [chemical binding]; other site 383629007458 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 383629007459 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 383629007460 FAD binding pocket [chemical binding]; other site 383629007461 conserved FAD binding motif [chemical binding]; other site 383629007462 phosphate binding motif [ion binding]; other site 383629007463 beta-alpha-beta structure motif; other site 383629007464 NAD binding pocket [chemical binding]; other site 383629007465 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629007466 MarR family; Region: MarR_2; pfam12802 383629007467 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629007468 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 383629007469 putative DNA binding site [nucleotide binding]; other site 383629007470 putative Zn2+ binding site [ion binding]; other site 383629007471 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 383629007472 EF-hand domain pair; Region: EF_hand_5; pfam13499 383629007473 Ca2+ binding site [ion binding]; other site 383629007474 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 383629007475 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 383629007476 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 383629007477 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 383629007478 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 383629007479 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 383629007480 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 383629007481 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 383629007482 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 383629007483 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 383629007484 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 383629007485 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 383629007486 active site 383629007487 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629007488 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 383629007489 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 383629007490 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 383629007491 excinuclease ABC subunit B; Provisional; Region: PRK05298 383629007492 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 383629007493 ATP-binding site [chemical binding]; other site 383629007494 ATP binding site [chemical binding]; other site 383629007495 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 383629007496 nucleotide binding region [chemical binding]; other site 383629007497 ATP-binding site [chemical binding]; other site 383629007498 Ultra-violet resistance protein B; Region: UvrB; pfam12344 383629007499 UvrB/uvrC motif; Region: UVR; pfam02151 383629007500 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 383629007501 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 383629007502 Ligand Binding Site [chemical binding]; other site 383629007503 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 383629007504 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 383629007505 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 383629007506 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629007507 active site 383629007508 nucleotide binding site [chemical binding]; other site 383629007509 HIGH motif; other site 383629007510 KMSKS motif; other site 383629007511 tellurite resistance protein terB; Region: terB; cd07176 383629007512 putative metal binding site [ion binding]; other site 383629007513 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629007514 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629007515 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 383629007516 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 383629007517 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 383629007518 active site 383629007519 (T/H)XGH motif; other site 383629007520 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 383629007521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629007522 Walker A/P-loop; other site 383629007523 ATP binding site [chemical binding]; other site 383629007524 Q-loop/lid; other site 383629007525 ABC transporter signature motif; other site 383629007526 Walker B; other site 383629007527 D-loop; other site 383629007528 H-loop/switch region; other site 383629007529 ABC transporter; Region: ABC_tran_2; pfam12848 383629007530 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 383629007531 thioredoxin 2; Provisional; Region: PRK10996 383629007532 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 383629007533 catalytic residues [active] 383629007534 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 383629007535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 383629007536 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 383629007537 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 383629007538 DNA-binding site [nucleotide binding]; DNA binding site 383629007539 RNA-binding motif; other site 383629007540 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 383629007541 active site 383629007542 catalytic triad [active] 383629007543 oxyanion hole [active] 383629007544 switch loop; other site 383629007545 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 383629007546 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 383629007547 Walker A/P-loop; other site 383629007548 ATP binding site [chemical binding]; other site 383629007549 Q-loop/lid; other site 383629007550 ABC transporter signature motif; other site 383629007551 Walker B; other site 383629007552 D-loop; other site 383629007553 H-loop/switch region; other site 383629007554 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 383629007555 Predicted transcriptional regulator [Transcription]; Region: COG1959 383629007556 Transcriptional regulator; Region: Rrf2; cl17282 383629007557 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 383629007558 putative active site pocket [active] 383629007559 dimerization interface [polypeptide binding]; other site 383629007560 putative catalytic residue [active] 383629007561 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 383629007562 Predicted membrane protein [Function unknown]; Region: COG4325 383629007563 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 383629007564 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629007565 active site 383629007566 HIGH motif; other site 383629007567 nucleotide binding site [chemical binding]; other site 383629007568 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 383629007569 active site 383629007570 KMSKS motif; other site 383629007571 PAS fold; Region: PAS_7; pfam12860 383629007572 GAF domain; Region: GAF_3; pfam13492 383629007573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 383629007574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629007575 metal binding site [ion binding]; metal-binding site 383629007576 active site 383629007577 I-site; other site 383629007578 NAD synthetase; Provisional; Region: PRK13981 383629007579 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 383629007580 multimer interface [polypeptide binding]; other site 383629007581 active site 383629007582 catalytic triad [active] 383629007583 protein interface 1 [polypeptide binding]; other site 383629007584 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 383629007585 homodimer interface [polypeptide binding]; other site 383629007586 NAD binding pocket [chemical binding]; other site 383629007587 ATP binding pocket [chemical binding]; other site 383629007588 Mg binding site [ion binding]; other site 383629007589 active-site loop [active] 383629007590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 383629007591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 383629007592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 383629007593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 383629007594 2-isopropylmalate synthase; Validated; Region: PRK00915 383629007595 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 383629007596 active site 383629007597 catalytic residues [active] 383629007598 metal binding site [ion binding]; metal-binding site 383629007599 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 383629007600 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 383629007601 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 383629007602 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 383629007603 rod shape-determining protein MreB; Provisional; Region: PRK13927 383629007604 MreB and similar proteins; Region: MreB_like; cd10225 383629007605 nucleotide binding site [chemical binding]; other site 383629007606 Mg binding site [ion binding]; other site 383629007607 putative protofilament interaction site [polypeptide binding]; other site 383629007608 RodZ interaction site [polypeptide binding]; other site 383629007609 rod shape-determining protein MreC; Provisional; Region: PRK13922 383629007610 rod shape-determining protein MreC; Region: MreC; pfam04085 383629007611 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 383629007612 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 383629007613 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 383629007614 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 383629007615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629007616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629007617 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 383629007618 dimerization interface [polypeptide binding]; other site 383629007619 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629007620 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_18; cd08357 383629007621 putative metal binding site [ion binding]; other site 383629007622 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 383629007623 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 383629007624 putative ligand binding site [chemical binding]; other site 383629007625 NAD binding site [chemical binding]; other site 383629007626 dimerization interface [polypeptide binding]; other site 383629007627 catalytic site [active] 383629007628 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 383629007629 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 383629007630 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 383629007631 active site 383629007632 Zn binding site [ion binding]; other site 383629007633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007634 dimer interface [polypeptide binding]; other site 383629007635 conserved gate region; other site 383629007636 putative PBP binding loops; other site 383629007637 ABC-ATPase subunit interface; other site 383629007638 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629007639 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 383629007640 substrate binding pocket [chemical binding]; other site 383629007641 membrane-bound complex binding site; other site 383629007642 hinge residues; other site 383629007643 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 383629007644 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 383629007645 ATP binding site [chemical binding]; other site 383629007646 substrate interface [chemical binding]; other site 383629007647 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 383629007648 trimer interface [polypeptide binding]; other site 383629007649 active site 383629007650 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 383629007651 Flavoprotein; Region: Flavoprotein; pfam02441 383629007652 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 383629007653 Protein of unknown function, DUF399; Region: DUF399; pfam04187 383629007654 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 383629007655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629007656 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 383629007657 DNA binding residues [nucleotide binding] 383629007658 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 383629007659 homotrimer interface [polypeptide binding]; other site 383629007660 Walker A motif; other site 383629007661 GTP binding site [chemical binding]; other site 383629007662 Walker B motif; other site 383629007663 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 383629007664 catalytic core [active] 383629007665 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 383629007666 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629007667 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 383629007668 putative N-terminal domain interface [polypeptide binding]; other site 383629007669 putative dimer interface [polypeptide binding]; other site 383629007670 putative substrate binding pocket (H-site) [chemical binding]; other site 383629007671 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 383629007672 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 383629007673 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 383629007674 Walker A motif; other site 383629007675 ATP binding site [chemical binding]; other site 383629007676 Walker B motif; other site 383629007677 arginine finger; other site 383629007678 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 383629007679 glutathione synthetase; Provisional; Region: PRK05246 383629007680 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 383629007681 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 383629007682 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 383629007683 Predicted methyltransferases [General function prediction only]; Region: COG0313 383629007684 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 383629007685 putative SAM binding site [chemical binding]; other site 383629007686 putative homodimer interface [polypeptide binding]; other site 383629007687 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629007688 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 383629007689 putative ligand binding site [chemical binding]; other site 383629007690 PII uridylyl-transferase; Provisional; Region: PRK05092 383629007691 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 383629007692 metal binding triad; other site 383629007693 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 383629007694 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 383629007695 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 383629007696 Zn2+ binding site [ion binding]; other site 383629007697 Mg2+ binding site [ion binding]; other site 383629007698 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 383629007699 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 383629007700 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 383629007701 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 383629007702 Rhomboid family; Region: Rhomboid; cl11446 383629007703 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 383629007704 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 383629007705 active site 383629007706 HIGH motif; other site 383629007707 dimer interface [polypeptide binding]; other site 383629007708 KMSKS motif; other site 383629007709 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 383629007710 DNA-binding site [nucleotide binding]; DNA binding site 383629007711 RNA-binding motif; other site 383629007712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629007713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629007714 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 383629007715 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 383629007716 active site 383629007717 AMP binding site [chemical binding]; other site 383629007718 homodimer interface [polypeptide binding]; other site 383629007719 acyl-activating enzyme (AAE) consensus motif; other site 383629007720 CoA binding site [chemical binding]; other site 383629007721 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 383629007722 CoenzymeA binding site [chemical binding]; other site 383629007723 subunit interaction site [polypeptide binding]; other site 383629007724 PHB binding site; other site 383629007725 enoyl-CoA hydratase; Provisional; Region: PRK08140 383629007726 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 383629007727 substrate binding site [chemical binding]; other site 383629007728 oxyanion hole (OAH) forming residues; other site 383629007729 trimer interface [polypeptide binding]; other site 383629007730 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 383629007731 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 383629007732 substrate binding site [chemical binding]; other site 383629007733 dimer interface [polypeptide binding]; other site 383629007734 NADP binding site [chemical binding]; other site 383629007735 catalytic residues [active] 383629007736 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 383629007737 active site 2 [active] 383629007738 active site 1 [active] 383629007739 PaaX-like protein; Region: PaaX; pfam07848 383629007740 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 383629007741 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 383629007742 dimer interface [polypeptide binding]; other site 383629007743 [2Fe-2S] cluster binding site [ion binding]; other site 383629007744 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 383629007745 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 383629007746 Walker A/P-loop; other site 383629007747 ATP binding site [chemical binding]; other site 383629007748 Q-loop/lid; other site 383629007749 ABC transporter signature motif; other site 383629007750 Walker B; other site 383629007751 D-loop; other site 383629007752 H-loop/switch region; other site 383629007753 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 383629007754 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 383629007755 putative ligand binding residues [chemical binding]; other site 383629007756 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 383629007757 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 383629007758 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 383629007759 dimer interface [polypeptide binding]; other site 383629007760 putative PBP binding regions; other site 383629007761 ABC-ATPase subunit interface; other site 383629007762 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 383629007763 homotrimer interaction site [polypeptide binding]; other site 383629007764 putative active site [active] 383629007765 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 383629007766 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 383629007767 putative ligand binding site [chemical binding]; other site 383629007768 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 383629007769 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 383629007770 Walker A/P-loop; other site 383629007771 ATP binding site [chemical binding]; other site 383629007772 Q-loop/lid; other site 383629007773 ABC transporter signature motif; other site 383629007774 Walker B; other site 383629007775 D-loop; other site 383629007776 H-loop/switch region; other site 383629007777 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 383629007778 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629007779 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 383629007780 TM-ABC transporter signature motif; other site 383629007781 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629007782 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 383629007783 TM-ABC transporter signature motif; other site 383629007784 cytosine deaminase; Validated; Region: PRK07572 383629007785 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 383629007786 active site 383629007787 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 383629007788 BON domain; Region: BON; pfam04972 383629007789 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 383629007790 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629007791 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 383629007792 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 383629007793 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 383629007794 CsbD-like; Region: CsbD; cl17424 383629007795 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 383629007796 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 383629007797 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 383629007798 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 383629007799 putative active site [active] 383629007800 catalytic site [active] 383629007801 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 383629007802 PLD-like domain; Region: PLDc_2; pfam13091 383629007803 putative active site [active] 383629007804 catalytic site [active] 383629007805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 383629007806 Histidine kinase; Region: HisKA_2; pfam07568 383629007807 RNA polymerase sigma factor; Provisional; Region: PRK12546 383629007808 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629007809 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 383629007810 DNA binding residues [nucleotide binding] 383629007811 two-component response regulator; Provisional; Region: PRK09191 383629007812 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 383629007813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629007814 active site 383629007815 phosphorylation site [posttranslational modification] 383629007816 intermolecular recognition site; other site 383629007817 dimerization interface [polypeptide binding]; other site 383629007818 Ferritin-like domain; Region: Ferritin; pfam00210 383629007819 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 383629007820 dimerization interface [polypeptide binding]; other site 383629007821 DPS ferroxidase diiron center [ion binding]; other site 383629007822 ion pore; other site 383629007823 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 383629007824 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 383629007825 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 383629007826 putative active site [active] 383629007827 N-formylglutamate amidohydrolase; Region: FGase; cl01522 383629007828 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 383629007829 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629007830 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629007831 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629007832 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 383629007833 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629007834 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 383629007835 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 383629007836 NAD(P) binding site [chemical binding]; other site 383629007837 catalytic residues [active] 383629007838 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 383629007839 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 383629007840 putative active site [active] 383629007841 metal binding site [ion binding]; metal-binding site 383629007842 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 383629007843 Zn2+ binding site [ion binding]; other site 383629007844 Mg2+ binding site [ion binding]; other site 383629007845 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 383629007846 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; cd00250 383629007847 substrate binding pocket [chemical binding]; other site 383629007848 active site 383629007849 iron coordination sites [ion binding]; other site 383629007850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629007851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629007852 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 383629007853 dimerization interface [polypeptide binding]; other site 383629007854 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629007855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629007856 active site 383629007857 phosphorylation site [posttranslational modification] 383629007858 intermolecular recognition site; other site 383629007859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629007860 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 383629007861 ATP binding site [chemical binding]; other site 383629007862 Mg2+ binding site [ion binding]; other site 383629007863 G-X-G motif; other site 383629007864 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629007865 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629007866 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 383629007867 dimerization interface [polypeptide binding]; other site 383629007868 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 383629007869 dimer interface [polypeptide binding]; other site 383629007870 phosphorylation site [posttranslational modification] 383629007871 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 383629007872 ATP binding site [chemical binding]; other site 383629007873 Mg2+ binding site [ion binding]; other site 383629007874 G-X-G motif; other site 383629007875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629007876 Response regulator receiver domain; Region: Response_reg; pfam00072 383629007877 active site 383629007878 phosphorylation site [posttranslational modification] 383629007879 intermolecular recognition site; other site 383629007880 dimerization interface [polypeptide binding]; other site 383629007881 Amidohydrolase; Region: Amidohydro_2; pfam04909 383629007882 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 383629007883 SnoaL-like domain; Region: SnoaL_2; pfam12680 383629007884 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 383629007885 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 383629007886 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629007887 Walker A/P-loop; other site 383629007888 ATP binding site [chemical binding]; other site 383629007889 Q-loop/lid; other site 383629007890 ABC transporter signature motif; other site 383629007891 Walker B; other site 383629007892 D-loop; other site 383629007893 H-loop/switch region; other site 383629007894 TOBE domain; Region: TOBE_2; pfam08402 383629007895 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629007896 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629007897 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007898 dimer interface [polypeptide binding]; other site 383629007899 conserved gate region; other site 383629007900 ABC-ATPase subunit interface; other site 383629007901 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629007902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629007903 dimer interface [polypeptide binding]; other site 383629007904 conserved gate region; other site 383629007905 putative PBP binding loops; other site 383629007906 ABC-ATPase subunit interface; other site 383629007907 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 383629007908 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 383629007909 histidinol dehydrogenase; Region: hisD; TIGR00069 383629007910 NAD binding site [chemical binding]; other site 383629007911 dimerization interface [polypeptide binding]; other site 383629007912 product binding site; other site 383629007913 substrate binding site [chemical binding]; other site 383629007914 zinc binding site [ion binding]; other site 383629007915 catalytic residues [active] 383629007916 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 383629007917 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 383629007918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629007919 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 383629007920 NAD(P) binding site [chemical binding]; other site 383629007921 active site 383629007922 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629007923 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629007924 DNA binding site [nucleotide binding] 383629007925 domain linker motif; other site 383629007926 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_2; cd06278 383629007927 putative dimerization interface [polypeptide binding]; other site 383629007928 putative ligand binding site [chemical binding]; other site 383629007929 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 383629007930 SnoaL-like domain; Region: SnoaL_2; pfam12680 383629007931 Cupin domain; Region: Cupin_2; pfam07883 383629007932 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 383629007933 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 383629007934 substrate binding site [chemical binding]; other site 383629007935 THF binding site; other site 383629007936 zinc-binding site [ion binding]; other site 383629007937 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 383629007938 TAP-like protein; Region: Abhydrolase_4; pfam08386 383629007939 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 383629007940 HAMP domain; Region: HAMP; pfam00672 383629007941 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629007942 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629007943 dimer interface [polypeptide binding]; other site 383629007944 putative CheW interface [polypeptide binding]; other site 383629007945 Nitrate and nitrite sensing; Region: NIT; pfam08376 383629007946 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 383629007947 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 383629007948 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 383629007949 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 383629007950 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 383629007951 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 383629007952 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629007953 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 383629007954 DNA binding residues [nucleotide binding] 383629007955 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 383629007956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629007957 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629007958 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 383629007959 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 383629007960 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 383629007961 S-adenosylmethionine binding site [chemical binding]; other site 383629007962 MFS/sugar transport protein; Region: MFS_2; pfam13347 383629007963 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 383629007964 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 383629007965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629007966 NAD(P) binding site [chemical binding]; other site 383629007967 active site 383629007968 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 383629007969 NADP binding site [chemical binding]; other site 383629007970 homodimer interface [polypeptide binding]; other site 383629007971 active site 383629007972 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 383629007973 dimerization interface [polypeptide binding]; other site 383629007974 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 383629007975 dimer interface [polypeptide binding]; other site 383629007976 phosphorylation site [posttranslational modification] 383629007977 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 383629007978 ATP binding site [chemical binding]; other site 383629007979 Mg2+ binding site [ion binding]; other site 383629007980 G-X-G motif; other site 383629007981 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 383629007982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629007983 active site 383629007984 phosphorylation site [posttranslational modification] 383629007985 intermolecular recognition site; other site 383629007986 dimerization interface [polypeptide binding]; other site 383629007987 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 383629007988 Walker A motif; other site 383629007989 ATP binding site [chemical binding]; other site 383629007990 Walker B motif; other site 383629007991 arginine finger; other site 383629007992 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 383629007993 FOG: WD40 repeat [General function prediction only]; Region: COG2319 383629007994 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 383629007995 structural tetrad; other site 383629007996 Cytochrome c; Region: Cytochrom_C; cl11414 383629007997 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 383629007998 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 383629007999 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 383629008000 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 383629008001 [4Fe-4S] binding site [ion binding]; other site 383629008002 molybdopterin cofactor binding site; other site 383629008003 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 383629008004 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 383629008005 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 383629008006 molybdopterin cofactor binding site; other site 383629008007 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 383629008008 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 383629008009 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 383629008010 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 383629008011 4Fe-4S binding domain; Region: Fer4; pfam00037 383629008012 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 383629008013 4Fe-4S binding domain; Region: Fer4; pfam00037 383629008014 antiporter inner membrane protein; Provisional; Region: PRK11670 383629008015 Domain of unknown function DUF59; Region: DUF59; pfam01883 383629008016 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 383629008017 Walker A motif; other site 383629008018 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 383629008019 PBP superfamily domain; Region: PBP_like_2; pfam12849 383629008020 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 383629008021 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 383629008022 Walker A/P-loop; other site 383629008023 ATP binding site [chemical binding]; other site 383629008024 Q-loop/lid; other site 383629008025 ABC transporter signature motif; other site 383629008026 Walker B; other site 383629008027 D-loop; other site 383629008028 H-loop/switch region; other site 383629008029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629008030 quinolinate synthetase; Provisional; Region: PRK09375 383629008031 L-aspartate oxidase; Provisional; Region: PRK07512 383629008032 L-aspartate oxidase; Provisional; Region: PRK06175 383629008033 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 383629008034 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 383629008035 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 383629008036 dimerization interface [polypeptide binding]; other site 383629008037 active site 383629008038 Methyltransferase domain; Region: Methyltransf_23; pfam13489 383629008039 Predicted membrane protein [Function unknown]; Region: COG2246 383629008040 GtrA-like protein; Region: GtrA; pfam04138 383629008041 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 383629008042 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 383629008043 Ligand binding site; other site 383629008044 Putative Catalytic site; other site 383629008045 DXD motif; other site 383629008046 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 383629008047 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 383629008048 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 383629008049 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 383629008050 CoA-transferase family III; Region: CoA_transf_3; pfam02515 383629008051 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 383629008052 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 383629008053 active site 383629008054 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 383629008055 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 383629008056 dimer interface [polypeptide binding]; other site 383629008057 active site 383629008058 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 383629008059 dimer interface [polypeptide binding]; other site 383629008060 active site 383629008061 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 383629008062 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629008063 DNA-binding site [nucleotide binding]; DNA binding site 383629008064 UTRA domain; Region: UTRA; pfam07702 383629008065 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 383629008066 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 383629008067 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 383629008068 putative active site [active] 383629008069 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629008070 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629008071 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 383629008072 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008073 dimer interface [polypeptide binding]; other site 383629008074 conserved gate region; other site 383629008075 putative PBP binding loops; other site 383629008076 ABC-ATPase subunit interface; other site 383629008077 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629008078 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008079 dimer interface [polypeptide binding]; other site 383629008080 conserved gate region; other site 383629008081 putative PBP binding loops; other site 383629008082 ABC-ATPase subunit interface; other site 383629008083 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629008084 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629008085 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 383629008086 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629008087 Walker A/P-loop; other site 383629008088 ATP binding site [chemical binding]; other site 383629008089 Q-loop/lid; other site 383629008090 ABC transporter signature motif; other site 383629008091 Walker B; other site 383629008092 D-loop; other site 383629008093 H-loop/switch region; other site 383629008094 TOBE domain; Region: TOBE_2; pfam08402 383629008095 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 383629008096 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 383629008097 active site 383629008098 dimer interface [polypeptide binding]; other site 383629008099 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 383629008100 dimer interface [polypeptide binding]; other site 383629008101 active site 383629008102 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 383629008103 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 383629008104 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 383629008105 phosphogluconate dehydratase; Validated; Region: PRK09054 383629008106 6-phosphogluconate dehydratase; Region: edd; TIGR01196 383629008107 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 383629008108 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 383629008109 active site 383629008110 intersubunit interface [polypeptide binding]; other site 383629008111 catalytic residue [active] 383629008112 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 383629008113 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 383629008114 putative substrate binding site [chemical binding]; other site 383629008115 putative ATP binding site [chemical binding]; other site 383629008116 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 383629008117 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 383629008118 active site 383629008119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629008120 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 383629008121 Walker A/P-loop; other site 383629008122 ATP binding site [chemical binding]; other site 383629008123 Q-loop/lid; other site 383629008124 ABC transporter signature motif; other site 383629008125 Walker B; other site 383629008126 D-loop; other site 383629008127 H-loop/switch region; other site 383629008128 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629008129 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 383629008130 TM-ABC transporter signature motif; other site 383629008131 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 383629008132 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 383629008133 ligand binding site [chemical binding]; other site 383629008134 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629008135 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 383629008136 putative DNA binding site [nucleotide binding]; other site 383629008137 putative Zn2+ binding site [ion binding]; other site 383629008138 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 383629008139 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 383629008140 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 383629008141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 383629008142 Coenzyme A binding pocket [chemical binding]; other site 383629008143 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 383629008144 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 383629008145 putative active site [active] 383629008146 putative PHP Thumb interface [polypeptide binding]; other site 383629008147 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 383629008148 generic binding surface II; other site 383629008149 generic binding surface I; other site 383629008150 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 383629008151 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 383629008152 catalytic loop [active] 383629008153 iron binding site [ion binding]; other site 383629008154 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 383629008155 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 383629008156 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 383629008157 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 383629008158 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 383629008159 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 383629008160 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 383629008161 XdhC Rossmann domain; Region: XdhC_C; pfam13478 383629008162 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 383629008163 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 383629008164 Walker A/P-loop; other site 383629008165 ATP binding site [chemical binding]; other site 383629008166 Q-loop/lid; other site 383629008167 ABC transporter signature motif; other site 383629008168 Walker B; other site 383629008169 D-loop; other site 383629008170 H-loop/switch region; other site 383629008171 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 383629008172 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629008173 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 383629008174 TM-ABC transporter signature motif; other site 383629008175 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 383629008176 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629008177 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 383629008178 TM-ABC transporter signature motif; other site 383629008179 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 383629008180 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 383629008181 putative ligand binding site [chemical binding]; other site 383629008182 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 383629008183 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 383629008184 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 383629008185 active site 383629008186 catalytic tetrad [active] 383629008187 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629008188 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629008189 Methyltransferase domain; Region: Methyltransf_23; pfam13489 383629008190 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 383629008191 S-adenosylmethionine binding site [chemical binding]; other site 383629008192 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629008193 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629008194 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629008195 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629008196 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629008197 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629008198 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 383629008199 FAD binding domain; Region: FAD_binding_4; pfam01565 383629008200 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 383629008201 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 383629008202 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 383629008203 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 383629008204 dimerization interface [polypeptide binding]; other site 383629008205 ligand binding site [chemical binding]; other site 383629008206 NADP binding site [chemical binding]; other site 383629008207 catalytic site [active] 383629008208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 383629008209 Bacterial SH3 domain; Region: SH3_4; pfam06347 383629008210 Bacterial SH3 domain; Region: SH3_4; pfam06347 383629008211 AAA domain; Region: AAA_23; pfam13476 383629008212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629008213 Walker A/P-loop; other site 383629008214 ATP binding site [chemical binding]; other site 383629008215 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 383629008216 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 383629008217 active site 383629008218 metal binding site [ion binding]; metal-binding site 383629008219 DNA binding site [nucleotide binding] 383629008220 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 383629008221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629008222 DNA-binding site [nucleotide binding]; DNA binding site 383629008223 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 383629008224 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 383629008225 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 383629008226 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 383629008227 Walker A/P-loop; other site 383629008228 ATP binding site [chemical binding]; other site 383629008229 Q-loop/lid; other site 383629008230 ABC transporter signature motif; other site 383629008231 Walker B; other site 383629008232 D-loop; other site 383629008233 H-loop/switch region; other site 383629008234 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 383629008235 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008236 dimer interface [polypeptide binding]; other site 383629008237 conserved gate region; other site 383629008238 ABC-ATPase subunit interface; other site 383629008239 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 383629008240 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 383629008241 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 383629008242 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 383629008243 catalytic triad [active] 383629008244 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 383629008245 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629008246 Hemerythrin-like domain; Region: Hr-like; cd12108 383629008247 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 383629008248 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629008249 Walker A/P-loop; other site 383629008250 ATP binding site [chemical binding]; other site 383629008251 Q-loop/lid; other site 383629008252 ABC transporter signature motif; other site 383629008253 Walker B; other site 383629008254 D-loop; other site 383629008255 H-loop/switch region; other site 383629008256 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 383629008257 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629008258 Walker A/P-loop; other site 383629008259 ATP binding site [chemical binding]; other site 383629008260 Q-loop/lid; other site 383629008261 ABC transporter signature motif; other site 383629008262 Walker B; other site 383629008263 D-loop; other site 383629008264 H-loop/switch region; other site 383629008265 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629008266 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 383629008267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008268 dimer interface [polypeptide binding]; other site 383629008269 conserved gate region; other site 383629008270 ABC-ATPase subunit interface; other site 383629008271 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629008272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008273 dimer interface [polypeptide binding]; other site 383629008274 conserved gate region; other site 383629008275 putative PBP binding loops; other site 383629008276 ABC-ATPase subunit interface; other site 383629008277 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 383629008278 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 383629008279 non-specific DNA binding site [nucleotide binding]; other site 383629008280 salt bridge; other site 383629008281 sequence-specific DNA binding site [nucleotide binding]; other site 383629008282 Cupin domain; Region: Cupin_2; pfam07883 383629008283 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 383629008284 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 383629008285 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629008286 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629008287 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 383629008288 active site 383629008289 Response regulator receiver domain; Region: Response_reg; pfam00072 383629008290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629008291 active site 383629008292 phosphorylation site [posttranslational modification] 383629008293 intermolecular recognition site; other site 383629008294 dimerization interface [polypeptide binding]; other site 383629008295 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629008296 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 383629008297 substrate binding pocket [chemical binding]; other site 383629008298 membrane-bound complex binding site; other site 383629008299 hinge residues; other site 383629008300 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 383629008301 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629008302 substrate binding pocket [chemical binding]; other site 383629008303 membrane-bound complex binding site; other site 383629008304 hinge residues; other site 383629008305 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 383629008306 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 383629008307 dimer interface [polypeptide binding]; other site 383629008308 phosphorylation site [posttranslational modification] 383629008309 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 383629008310 ATP binding site [chemical binding]; other site 383629008311 Mg2+ binding site [ion binding]; other site 383629008312 G-X-G motif; other site 383629008313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629008314 active site 383629008315 phosphorylation site [posttranslational modification] 383629008316 intermolecular recognition site; other site 383629008317 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629008318 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629008319 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 383629008320 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 383629008321 putative NAD(P) binding site [chemical binding]; other site 383629008322 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 383629008323 active site 1 [active] 383629008324 dimer interface [polypeptide binding]; other site 383629008325 hexamer interface [polypeptide binding]; other site 383629008326 active site 2 [active] 383629008327 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 383629008328 glutathionine S-transferase; Provisional; Region: PRK10542 383629008329 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 383629008330 C-terminal domain interface [polypeptide binding]; other site 383629008331 GSH binding site (G-site) [chemical binding]; other site 383629008332 dimer interface [polypeptide binding]; other site 383629008333 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 383629008334 dimer interface [polypeptide binding]; other site 383629008335 N-terminal domain interface [polypeptide binding]; other site 383629008336 substrate binding pocket (H-site) [chemical binding]; other site 383629008337 transcriptional regulator, ArgP family; Region: argP; TIGR03298 383629008338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629008339 dimerization interface [polypeptide binding]; other site 383629008340 LysR substrate binding domain; Region: LysR_substrate; pfam03466 383629008341 PAS fold; Region: PAS_2; pfam08446 383629008342 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 383629008343 putative active site [active] 383629008344 heme pocket [chemical binding]; other site 383629008345 GAF domain; Region: GAF; pfam01590 383629008346 Phytochrome region; Region: PHY; pfam00360 383629008347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 383629008348 HWE histidine kinase; Region: HWE_HK; pfam07536 383629008349 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629008350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629008351 active site 383629008352 phosphorylation site [posttranslational modification] 383629008353 intermolecular recognition site; other site 383629008354 reductive dehalogenase; Region: RDH; TIGR02486 383629008355 reductive dehalogenase; Region: RDH; TIGR02486 383629008356 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 383629008357 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 383629008358 FMN-binding pocket [chemical binding]; other site 383629008359 flavin binding motif; other site 383629008360 phosphate binding motif [ion binding]; other site 383629008361 beta-alpha-beta structure motif; other site 383629008362 NAD binding pocket [chemical binding]; other site 383629008363 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 383629008364 catalytic loop [active] 383629008365 iron binding site [ion binding]; other site 383629008366 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 383629008367 putative active site [active] 383629008368 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 383629008369 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 383629008370 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 383629008371 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 383629008372 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 383629008373 putative active site [active] 383629008374 putative dimer interface [polypeptide binding]; other site 383629008375 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 383629008376 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 383629008377 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629008378 catalytic residue [active] 383629008379 hypothetical protein; Provisional; Region: PRK07483 383629008380 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 383629008381 inhibitor-cofactor binding pocket; inhibition site 383629008382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629008383 catalytic residue [active] 383629008384 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 383629008385 aminotransferase; Validated; Region: PRK07678 383629008386 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 383629008387 inhibitor-cofactor binding pocket; inhibition site 383629008388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629008389 catalytic residue [active] 383629008390 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 383629008391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 383629008392 Predicted permease; Region: DUF318; cl17795 383629008393 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 383629008394 dimerization interface [polypeptide binding]; other site 383629008395 putative DNA binding site [nucleotide binding]; other site 383629008396 putative Zn2+ binding site [ion binding]; other site 383629008397 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 383629008398 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629008399 DNA-binding site [nucleotide binding]; DNA binding site 383629008400 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 383629008401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629008402 homodimer interface [polypeptide binding]; other site 383629008403 catalytic residue [active] 383629008404 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 383629008405 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 383629008406 PYR/PP interface [polypeptide binding]; other site 383629008407 dimer interface [polypeptide binding]; other site 383629008408 TPP binding site [chemical binding]; other site 383629008409 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 383629008410 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 383629008411 TPP-binding site [chemical binding]; other site 383629008412 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 383629008413 propionate/acetate kinase; Provisional; Region: PRK12379 383629008414 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 383629008415 Bacillus subtilis (Bs) citrate synthase (CS)-II_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). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 383629008416 dimer interface [polypeptide binding]; other site 383629008417 Citrate synthase; Region: Citrate_synt; pfam00285 383629008418 active site 383629008419 citrylCoA binding site [chemical binding]; other site 383629008420 oxalacetate/citrate binding site [chemical binding]; other site 383629008421 coenzyme A binding site [chemical binding]; other site 383629008422 catalytic triad [active] 383629008423 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 383629008424 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 383629008425 molybdopterin cofactor binding site; other site 383629008426 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 383629008427 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 383629008428 putative molybdopterin cofactor binding site; other site 383629008429 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 383629008430 4Fe-4S binding domain; Region: Fer4; pfam00037 383629008431 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 383629008432 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 383629008433 Uncharacterized conserved protein [Function unknown]; Region: COG2128 383629008434 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 383629008435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629008436 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 383629008437 DNA binding residues [nucleotide binding] 383629008438 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 383629008439 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 383629008440 dimer interface [polypeptide binding]; other site 383629008441 active site 383629008442 catalytic residue [active] 383629008443 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 383629008444 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 383629008445 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629008446 catalytic residue [active] 383629008447 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629008448 Uncharacterized conserved protein [Function unknown]; Region: COG4121 383629008449 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629008450 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629008451 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 383629008452 Predicted flavoprotein [General function prediction only]; Region: COG0431 383629008453 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 383629008454 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629008455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629008456 ligand binding site [chemical binding]; other site 383629008457 Predicted transcriptional regulator [Transcription]; Region: COG2378 383629008458 HTH domain; Region: HTH_11; pfam08279 383629008459 WYL domain; Region: WYL; pfam13280 383629008460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629008461 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 383629008462 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 383629008463 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 383629008464 DNA binding site [nucleotide binding] 383629008465 active site 383629008466 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 383629008467 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 383629008468 minor groove reading motif; other site 383629008469 helix-hairpin-helix signature motif; other site 383629008470 substrate binding pocket [chemical binding]; other site 383629008471 active site 383629008472 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 383629008473 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 383629008474 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 383629008475 substrate binding site [chemical binding]; other site 383629008476 ATP binding site [chemical binding]; other site 383629008477 MarR family; Region: MarR_2; cl17246 383629008478 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629008479 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 383629008480 EamA-like transporter family; Region: EamA; pfam00892 383629008481 EamA-like transporter family; Region: EamA; pfam00892 383629008482 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 383629008483 putative active site [active] 383629008484 Ap4A binding site [chemical binding]; other site 383629008485 nudix motif; other site 383629008486 putative metal binding site [ion binding]; other site 383629008487 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 383629008488 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 383629008489 active site 383629008490 FMN binding site [chemical binding]; other site 383629008491 2,4-decadienoyl-CoA binding site; other site 383629008492 catalytic residue [active] 383629008493 4Fe-4S cluster binding site [ion binding]; other site 383629008494 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 383629008495 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629008496 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629008497 intracellular protease, PfpI family; Region: PfpI; TIGR01382 383629008498 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 383629008499 proposed catalytic triad [active] 383629008500 conserved cys residue [active] 383629008501 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 383629008502 NIPSNAP; Region: NIPSNAP; pfam07978 383629008503 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 383629008504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629008505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629008506 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629008507 putative effector binding pocket; other site 383629008508 dimerization interface [polypeptide binding]; other site 383629008509 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 383629008510 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 383629008511 ligand binding site [chemical binding]; other site 383629008512 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 383629008513 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 383629008514 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 383629008515 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629008516 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 383629008517 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 383629008518 putative MPT binding site; other site 383629008519 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 383629008520 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 383629008521 Colicin V production protein; Region: Colicin_V; pfam02674 383629008522 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629008523 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 383629008524 active site 383629008525 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 383629008526 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 383629008527 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 383629008528 motif II; other site 383629008529 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 383629008530 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 383629008531 S-adenosylmethionine binding site [chemical binding]; other site 383629008532 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 383629008533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629008534 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 383629008535 catalytic triad [active] 383629008536 dimer interface [polypeptide binding]; other site 383629008537 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 383629008538 aromatic arch; other site 383629008539 DCoH dimer interaction site [polypeptide binding]; other site 383629008540 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 383629008541 DCoH tetramer interaction site [polypeptide binding]; other site 383629008542 substrate binding site [chemical binding]; other site 383629008543 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 383629008544 Protein of unknown function, DUF482; Region: DUF482; pfam04339 383629008545 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 383629008546 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 383629008547 active site 383629008548 catalytic site [active] 383629008549 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 383629008550 homotrimer interaction site [polypeptide binding]; other site 383629008551 putative active site [active] 383629008552 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 383629008553 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 383629008554 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629008555 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 383629008556 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629008557 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 383629008558 Walker A/P-loop; other site 383629008559 ATP binding site [chemical binding]; other site 383629008560 Q-loop/lid; other site 383629008561 ABC transporter signature motif; other site 383629008562 Walker B; other site 383629008563 D-loop; other site 383629008564 H-loop/switch region; other site 383629008565 VacJ like lipoprotein; Region: VacJ; cl01073 383629008566 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 383629008567 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629008568 Transglycosylase; Region: Transgly; pfam00912 383629008569 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 383629008570 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 383629008571 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 383629008572 Nitrogen regulatory protein P-II; Region: P-II; smart00938 383629008573 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 383629008574 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 383629008575 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 383629008576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629008577 homodimer interface [polypeptide binding]; other site 383629008578 catalytic residue [active] 383629008579 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 383629008580 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 383629008581 active site residue [active] 383629008582 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 383629008583 active site residue [active] 383629008584 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 383629008585 SmpB-tmRNA interface; other site 383629008586 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 383629008587 EamA-like transporter family; Region: EamA; pfam00892 383629008588 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629008589 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 383629008590 non-specific DNA binding site [nucleotide binding]; other site 383629008591 salt bridge; other site 383629008592 sequence-specific DNA binding site [nucleotide binding]; other site 383629008593 Cupin domain; Region: Cupin_2; pfam07883 383629008594 benzoate transporter; Region: benE; TIGR00843 383629008595 Benzoate membrane transport protein; Region: BenE; pfam03594 383629008596 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 383629008597 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 383629008598 nudix motif; other site 383629008599 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 383629008600 Core-2/I-Branching enzyme; Region: Branch; pfam02485 383629008601 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 383629008602 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 383629008603 Walker A motif; other site 383629008604 ATP binding site [chemical binding]; other site 383629008605 Walker B motif; other site 383629008606 arginine finger; other site 383629008607 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 383629008608 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 383629008609 S-adenosylmethionine binding site [chemical binding]; other site 383629008610 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 383629008611 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 383629008612 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629008613 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629008614 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 383629008615 active site 383629008616 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 383629008617 succinic semialdehyde dehydrogenase; Region: PLN02278 383629008618 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 383629008619 tetramerization interface [polypeptide binding]; other site 383629008620 NAD(P) binding site [chemical binding]; other site 383629008621 catalytic residues [active] 383629008622 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 383629008623 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 383629008624 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 383629008625 putative dimer interface [polypeptide binding]; other site 383629008626 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 383629008627 active site 383629008628 substrate binding sites [chemical binding]; other site 383629008629 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 383629008630 active site 383629008631 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 383629008632 Cysteine-rich domain; Region: CCG; pfam02754 383629008633 Cysteine-rich domain; Region: CCG; pfam02754 383629008634 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 383629008635 FAD binding domain; Region: FAD_binding_4; pfam01565 383629008636 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 383629008637 FAD binding domain; Region: FAD_binding_4; pfam01565 383629008638 Protein of unknown function, DUF599; Region: DUF599; pfam04654 383629008639 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 383629008640 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 383629008641 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 383629008642 Mechanosensitive ion channel; Region: MS_channel; pfam00924 383629008643 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 383629008644 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 383629008645 substrate binding site [chemical binding]; other site 383629008646 ligand binding site [chemical binding]; other site 383629008647 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 383629008648 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 383629008649 substrate binding site [chemical binding]; other site 383629008650 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 383629008651 tartrate dehydrogenase; Region: TTC; TIGR02089 383629008652 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 383629008653 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629008654 EamA-like transporter family; Region: EamA; pfam00892 383629008655 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 383629008656 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 383629008657 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 383629008658 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 383629008659 motif 1; other site 383629008660 dimer interface [polypeptide binding]; other site 383629008661 active site 383629008662 motif 2; other site 383629008663 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 383629008664 motif 3; other site 383629008665 histidyl-tRNA synthetase; Region: hisS; TIGR00442 383629008666 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 383629008667 dimer interface [polypeptide binding]; other site 383629008668 motif 1; other site 383629008669 motif 2; other site 383629008670 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 383629008671 active site 383629008672 motif 3; other site 383629008673 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 383629008674 anticodon binding site; other site 383629008675 SlyX; Region: SlyX; pfam04102 383629008676 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 383629008677 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 383629008678 metal-binding site [ion binding] 383629008679 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 383629008680 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 383629008681 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 383629008682 CoA-transferase family III; Region: CoA_transf_3; pfam02515 383629008683 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 383629008684 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 383629008685 substrate binding site [chemical binding]; other site 383629008686 active site 383629008687 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 383629008688 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 383629008689 domain interfaces; other site 383629008690 active site 383629008691 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 383629008692 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 383629008693 active site 383629008694 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 383629008695 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 383629008696 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 383629008697 classical (c) SDRs; Region: SDR_c; cd05233 383629008698 NAD(P) binding site [chemical binding]; other site 383629008699 active site 383629008700 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 383629008701 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 383629008702 S-adenosylmethionine binding site [chemical binding]; other site 383629008703 Uncharacterized conserved protein [Function unknown]; Region: COG2127 383629008704 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 383629008705 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; cl17915 383629008706 motif II; other site 383629008707 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 383629008708 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 383629008709 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 383629008710 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 383629008711 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 383629008712 metal-binding site [ion binding] 383629008713 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 383629008714 Soluble P-type ATPase [General function prediction only]; Region: COG4087 383629008715 FixH; Region: FixH; pfam05751 383629008716 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 383629008717 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 383629008718 4Fe-4S binding domain; Region: Fer4_5; pfam12801 383629008719 4Fe-4S binding domain; Region: Fer4_6; pfam12837 383629008720 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 383629008721 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 383629008722 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 383629008723 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 383629008724 Cytochrome c; Region: Cytochrom_C; pfam00034 383629008725 Cytochrome c; Region: Cytochrom_C; pfam00034 383629008726 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 383629008727 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 383629008728 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 383629008729 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 383629008730 Low-spin heme binding site [chemical binding]; other site 383629008731 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 383629008732 Putative water exit pathway; other site 383629008733 Binuclear center (active site) [active] 383629008734 Putative proton exit pathway; other site 383629008735 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 383629008736 Ligand Binding Site [chemical binding]; other site 383629008737 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 383629008738 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629008739 ligand binding site [chemical binding]; other site 383629008740 flexible hinge region; other site 383629008741 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 383629008742 putative switch regulator; other site 383629008743 non-specific DNA interactions [nucleotide binding]; other site 383629008744 DNA binding site [nucleotide binding] 383629008745 sequence specific DNA binding site [nucleotide binding]; other site 383629008746 putative cAMP binding site [chemical binding]; other site 383629008747 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 383629008748 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629008749 Walker A/P-loop; other site 383629008750 ATP binding site [chemical binding]; other site 383629008751 Q-loop/lid; other site 383629008752 ABC transporter signature motif; other site 383629008753 Walker B; other site 383629008754 D-loop; other site 383629008755 H-loop/switch region; other site 383629008756 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 383629008757 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629008758 Walker A/P-loop; other site 383629008759 ATP binding site [chemical binding]; other site 383629008760 Q-loop/lid; other site 383629008761 ABC transporter signature motif; other site 383629008762 Walker B; other site 383629008763 D-loop; other site 383629008764 H-loop/switch region; other site 383629008765 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629008766 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 383629008767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008768 dimer interface [polypeptide binding]; other site 383629008769 conserved gate region; other site 383629008770 putative PBP binding loops; other site 383629008771 ABC-ATPase subunit interface; other site 383629008772 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 383629008773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629008774 dimer interface [polypeptide binding]; other site 383629008775 conserved gate region; other site 383629008776 putative PBP binding loops; other site 383629008777 ABC-ATPase subunit interface; other site 383629008778 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 383629008779 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 383629008780 Cytochrome c2 [Energy production and conversion]; Region: COG3474 383629008781 prephenate dehydratase; Provisional; Region: PRK11899 383629008782 Prephenate dehydratase; Region: PDT; pfam00800 383629008783 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 383629008784 putative L-Phe binding site [chemical binding]; other site 383629008785 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 383629008786 hydrophobic ligand binding site; other site 383629008787 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 383629008788 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 383629008789 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 383629008790 putative NADH binding site [chemical binding]; other site 383629008791 putative active site [active] 383629008792 nudix motif; other site 383629008793 putative metal binding site [ion binding]; other site 383629008794 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 383629008795 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 383629008796 active site 383629008797 metal binding site [ion binding]; metal-binding site 383629008798 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 383629008799 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 383629008800 active site 383629008801 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 383629008802 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 383629008803 Walker A motif; other site 383629008804 ATP binding site [chemical binding]; other site 383629008805 Walker B motif; other site 383629008806 arginine finger; other site 383629008807 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 383629008808 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 383629008809 hypothetical protein; Validated; Region: PRK00153 383629008810 recombination protein RecR; Reviewed; Region: recR; PRK00076 383629008811 RecR protein; Region: RecR; pfam02132 383629008812 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 383629008813 putative active site [active] 383629008814 putative metal-binding site [ion binding]; other site 383629008815 tetramer interface [polypeptide binding]; other site 383629008816 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 383629008817 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 383629008818 B1 nucleotide binding pocket [chemical binding]; other site 383629008819 B2 nucleotide binding pocket [chemical binding]; other site 383629008820 CAS motifs; other site 383629008821 active site 383629008822 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 383629008823 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 383629008824 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 383629008825 NAD(P) binding site [chemical binding]; other site 383629008826 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 383629008827 COQ9; Region: COQ9; pfam08511 383629008828 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 383629008829 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 383629008830 choline dehydrogenase; Validated; Region: PRK02106 383629008831 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 383629008832 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 383629008833 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629008834 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 383629008835 putative DNA binding site [nucleotide binding]; other site 383629008836 putative Zn2+ binding site [ion binding]; other site 383629008837 AsnC family; Region: AsnC_trans_reg; pfam01037 383629008838 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 383629008839 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 383629008840 hexamer interface [polypeptide binding]; other site 383629008841 ligand binding site [chemical binding]; other site 383629008842 putative active site [active] 383629008843 NAD(P) binding site [chemical binding]; other site 383629008844 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629008845 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629008846 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 383629008847 Prostaglandin dehydrogenases; Region: PGDH; cd05288 383629008848 NAD(P) binding site [chemical binding]; other site 383629008849 substrate binding site [chemical binding]; other site 383629008850 dimer interface [polypeptide binding]; other site 383629008851 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 383629008852 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 383629008853 potential catalytic triad [active] 383629008854 conserved cys residue [active] 383629008855 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 383629008856 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 383629008857 homodimer interface [polypeptide binding]; other site 383629008858 substrate-cofactor binding pocket; other site 383629008859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629008860 catalytic residue [active] 383629008861 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 383629008862 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 383629008863 active site 383629008864 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 383629008865 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 383629008866 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629008867 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 383629008868 putative DNA binding site [nucleotide binding]; other site 383629008869 putative Zn2+ binding site [ion binding]; other site 383629008870 AsnC family; Region: AsnC_trans_reg; pfam01037 383629008871 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629008872 Helix-turn-helix domain; Region: HTH_18; pfam12833 383629008873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629008874 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 383629008875 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 383629008876 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 383629008877 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 383629008878 Transcriptional regulators [Transcription]; Region: GntR; COG1802 383629008879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629008880 DNA-binding site [nucleotide binding]; DNA binding site 383629008881 FCD domain; Region: FCD; pfam07729 383629008882 Protein of unknown function DUF45; Region: DUF45; pfam01863 383629008883 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 383629008884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 383629008885 Hint domain; Region: Hint_2; pfam13403 383629008886 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 383629008887 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 383629008888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629008889 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 383629008890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629008891 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 383629008892 dimerization interface [polypeptide binding]; other site 383629008893 substrate binding pocket [chemical binding]; other site 383629008894 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 383629008895 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 383629008896 putative NAD(P) binding site [chemical binding]; other site 383629008897 putative active site [active] 383629008898 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 383629008899 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 383629008900 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 383629008901 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 383629008902 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 383629008903 putative active site [active] 383629008904 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629008905 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 383629008906 TM-ABC transporter signature motif; other site 383629008907 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629008908 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629008909 Walker A/P-loop; other site 383629008910 ATP binding site [chemical binding]; other site 383629008911 Q-loop/lid; other site 383629008912 ABC transporter signature motif; other site 383629008913 Walker B; other site 383629008914 D-loop; other site 383629008915 H-loop/switch region; other site 383629008916 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 383629008917 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 383629008918 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629008919 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629008920 Walker A/P-loop; other site 383629008921 ATP binding site [chemical binding]; other site 383629008922 Q-loop/lid; other site 383629008923 ABC transporter signature motif; other site 383629008924 Walker B; other site 383629008925 D-loop; other site 383629008926 H-loop/switch region; other site 383629008927 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 383629008928 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629008929 TM-ABC transporter signature motif; other site 383629008930 N-formylglutamate amidohydrolase; Region: FGase; cl01522 383629008931 Isochorismatase family; Region: Isochorismatase; pfam00857 383629008932 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 383629008933 catalytic triad [active] 383629008934 conserved cis-peptide bond; other site 383629008935 Predicted deacylase [General function prediction only]; Region: COG3608 383629008936 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 383629008937 putative active site [active] 383629008938 Zn binding site [ion binding]; other site 383629008939 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 383629008940 RimK-like ATP-grasp domain; Region: RimK; pfam08443 383629008941 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 383629008942 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 383629008943 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 383629008944 Cl binding site [ion binding]; other site 383629008945 oligomer interface [polypeptide binding]; other site 383629008946 putative MFS family transporter protein; Provisional; Region: PRK03633 383629008947 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 383629008948 putative substrate translocation pore; other site 383629008949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629008950 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 383629008951 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 383629008952 ATP binding site [chemical binding]; other site 383629008953 Mg2+ binding site [ion binding]; other site 383629008954 G-X-G motif; other site 383629008955 mercuric reductase; Validated; Region: PRK06370 383629008956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629008957 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629008958 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 383629008959 Uncharacterized conserved protein [Function unknown]; Region: COG0398 383629008960 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 383629008961 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 383629008962 Ribonuclease P; Region: Ribonuclease_P; pfam00825 383629008963 Haemolytic domain; Region: Haemolytic; pfam01809 383629008964 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 383629008965 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 383629008966 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 383629008967 Ligand Binding Site [chemical binding]; other site 383629008968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 383629008969 metal binding site [ion binding]; metal-binding site 383629008970 active site 383629008971 I-site; other site 383629008972 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 383629008973 membrane protein insertase; Provisional; Region: PRK01318 383629008974 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 383629008975 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 383629008976 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 383629008977 MOSC domain; Region: MOSC; pfam03473 383629008978 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 383629008979 G1 box; other site 383629008980 GTP/Mg2+ binding site [chemical binding]; other site 383629008981 Switch I region; other site 383629008982 G2 box; other site 383629008983 G3 box; other site 383629008984 Switch II region; other site 383629008985 G4 box; other site 383629008986 G5 box; other site 383629008987 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 383629008988 classical (c) SDRs; Region: SDR_c; cd05233 383629008989 NAD(P) binding site [chemical binding]; other site 383629008990 active site 383629008991 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 383629008992 feedback inhibition sensing region; other site 383629008993 homohexameric interface [polypeptide binding]; other site 383629008994 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 383629008995 nucleotide binding site [chemical binding]; other site 383629008996 N-acetyl-L-glutamate binding site [chemical binding]; other site 383629008997 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 383629008998 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 383629008999 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 383629009000 catalytic core [active] 383629009001 Protein of unknown function, DUF; Region: DUF411; cl01142 383629009002 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 383629009003 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 383629009004 Walker A/P-loop; other site 383629009005 ATP binding site [chemical binding]; other site 383629009006 Q-loop/lid; other site 383629009007 ABC transporter signature motif; other site 383629009008 Walker B; other site 383629009009 D-loop; other site 383629009010 H-loop/switch region; other site 383629009011 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 383629009012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629009013 dimer interface [polypeptide binding]; other site 383629009014 conserved gate region; other site 383629009015 putative PBP binding loops; other site 383629009016 ABC-ATPase subunit interface; other site 383629009017 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 383629009018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629009019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629009020 dimer interface [polypeptide binding]; other site 383629009021 ABC-ATPase subunit interface; other site 383629009022 putative PBP binding loops; other site 383629009023 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 383629009024 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 383629009025 substrate binding pocket [chemical binding]; other site 383629009026 membrane-bound complex binding site; other site 383629009027 hinge residues; other site 383629009028 ATP12 chaperone protein; Region: ATP12; cl02228 383629009029 Eukaryotic phosphomannomutase; Region: PMM; cl17107 383629009030 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 383629009031 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 383629009032 motif II; other site 383629009033 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 383629009034 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 383629009035 RNA binding surface [nucleotide binding]; other site 383629009036 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 383629009037 active site 383629009038 CrcB-like protein; Region: CRCB; cl09114 383629009039 recombination factor protein RarA; Reviewed; Region: PRK13342 383629009040 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 383629009041 Walker A motif; other site 383629009042 ATP binding site [chemical binding]; other site 383629009043 Walker B motif; other site 383629009044 arginine finger; other site 383629009045 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 383629009046 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 383629009047 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 383629009048 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 383629009049 protein binding site [polypeptide binding]; other site 383629009050 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 383629009051 protein binding site [polypeptide binding]; other site 383629009052 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 383629009053 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 383629009054 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 383629009055 alphaNTD - beta interaction site [polypeptide binding]; other site 383629009056 alphaNTD homodimer interface [polypeptide binding]; other site 383629009057 alphaNTD - beta' interaction site [polypeptide binding]; other site 383629009058 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 383629009059 30S ribosomal protein S11; Validated; Region: PRK05309 383629009060 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 383629009061 30S ribosomal protein S13; Region: bact_S13; TIGR03631 383629009062 adenylate kinase; Reviewed; Region: adk; PRK00279 383629009063 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 383629009064 AMP-binding site [chemical binding]; other site 383629009065 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 383629009066 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 383629009067 SecY translocase; Region: SecY; pfam00344 383629009068 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 383629009069 Ion channel; Region: Ion_trans_2; pfam07885 383629009070 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 383629009071 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 383629009072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629009073 DNA-binding site [nucleotide binding]; DNA binding site 383629009074 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 383629009075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629009076 homodimer interface [polypeptide binding]; other site 383629009077 catalytic residue [active] 383629009078 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 383629009079 23S rRNA binding site [nucleotide binding]; other site 383629009080 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 383629009081 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 383629009082 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 383629009083 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 383629009084 5S rRNA interface [nucleotide binding]; other site 383629009085 23S rRNA interface [nucleotide binding]; other site 383629009086 L5 interface [polypeptide binding]; other site 383629009087 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 383629009088 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 383629009089 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 383629009090 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 383629009091 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 383629009092 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 383629009093 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 383629009094 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 383629009095 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 383629009096 RNA binding site [nucleotide binding]; other site 383629009097 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 383629009098 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 383629009099 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 383629009100 23S rRNA interface [nucleotide binding]; other site 383629009101 putative translocon interaction site; other site 383629009102 signal recognition particle (SRP54) interaction site; other site 383629009103 L23 interface [polypeptide binding]; other site 383629009104 trigger factor interaction site; other site 383629009105 conserved hypothetical protein; Region: TIGR02466 383629009106 Electron transfer DM13; Region: DM13; pfam10517 383629009107 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 383629009108 23S rRNA interface [nucleotide binding]; other site 383629009109 5S rRNA interface [nucleotide binding]; other site 383629009110 putative antibiotic binding site [chemical binding]; other site 383629009111 L25 interface [polypeptide binding]; other site 383629009112 L27 interface [polypeptide binding]; other site 383629009113 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 383629009114 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 383629009115 G-X-X-G motif; other site 383629009116 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 383629009117 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 383629009118 putative translocon binding site; other site 383629009119 protein-rRNA interface [nucleotide binding]; other site 383629009120 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 383629009121 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 383629009122 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 383629009123 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 383629009124 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 383629009125 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 383629009126 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 383629009127 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 383629009128 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 383629009129 elongation factor Tu; Reviewed; Region: PRK00049 383629009130 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 383629009131 G1 box; other site 383629009132 GEF interaction site [polypeptide binding]; other site 383629009133 GTP/Mg2+ binding site [chemical binding]; other site 383629009134 Switch I region; other site 383629009135 G2 box; other site 383629009136 G3 box; other site 383629009137 Switch II region; other site 383629009138 G4 box; other site 383629009139 G5 box; other site 383629009140 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 383629009141 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 383629009142 Antibiotic Binding Site [chemical binding]; other site 383629009143 elongation factor G; Reviewed; Region: PRK00007 383629009144 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 383629009145 G1 box; other site 383629009146 putative GEF interaction site [polypeptide binding]; other site 383629009147 GTP/Mg2+ binding site [chemical binding]; other site 383629009148 Switch I region; other site 383629009149 G2 box; other site 383629009150 G3 box; other site 383629009151 Switch II region; other site 383629009152 G4 box; other site 383629009153 G5 box; other site 383629009154 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 383629009155 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 383629009156 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 383629009157 30S ribosomal protein S7; Validated; Region: PRK05302 383629009158 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 383629009159 S17 interaction site [polypeptide binding]; other site 383629009160 S8 interaction site; other site 383629009161 16S rRNA interaction site [nucleotide binding]; other site 383629009162 streptomycin interaction site [chemical binding]; other site 383629009163 23S rRNA interaction site [nucleotide binding]; other site 383629009164 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 383629009165 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 383629009166 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629009167 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 383629009168 LysR family transcriptional regulator; Provisional; Region: PRK14997 383629009169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629009170 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629009171 putative effector binding pocket; other site 383629009172 dimerization interface [polypeptide binding]; other site 383629009173 Pirin-related protein [General function prediction only]; Region: COG1741 383629009174 Pirin; Region: Pirin; pfam02678 383629009175 Isochorismatase family; Region: Isochorismatase; pfam00857 383629009176 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 383629009177 catalytic triad [active] 383629009178 dimer interface [polypeptide binding]; other site 383629009179 conserved cis-peptide bond; other site 383629009180 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 383629009181 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 383629009182 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 383629009183 putative dimer interface [polypeptide binding]; other site 383629009184 N-terminal domain interface [polypeptide binding]; other site 383629009185 putative substrate binding pocket (H-site) [chemical binding]; other site 383629009186 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 383629009187 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 383629009188 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 383629009189 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 383629009190 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 383629009191 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 383629009192 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 383629009193 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 383629009194 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 383629009195 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 383629009196 DNA binding site [nucleotide binding] 383629009197 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 383629009198 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 383629009199 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 383629009200 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 383629009201 RPB12 interaction site [polypeptide binding]; other site 383629009202 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 383629009203 RPB11 interaction site [polypeptide binding]; other site 383629009204 RPB12 interaction site [polypeptide binding]; other site 383629009205 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 383629009206 RPB3 interaction site [polypeptide binding]; other site 383629009207 RPB1 interaction site [polypeptide binding]; other site 383629009208 RPB11 interaction site [polypeptide binding]; other site 383629009209 RPB10 interaction site [polypeptide binding]; other site 383629009210 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 383629009211 core dimer interface [polypeptide binding]; other site 383629009212 peripheral dimer interface [polypeptide binding]; other site 383629009213 L10 interface [polypeptide binding]; other site 383629009214 L11 interface [polypeptide binding]; other site 383629009215 putative EF-Tu interaction site [polypeptide binding]; other site 383629009216 putative EF-G interaction site [polypeptide binding]; other site 383629009217 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 383629009218 23S rRNA interface [nucleotide binding]; other site 383629009219 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 383629009220 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 383629009221 mRNA/rRNA interface [nucleotide binding]; other site 383629009222 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 383629009223 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 383629009224 23S rRNA interface [nucleotide binding]; other site 383629009225 L7/L12 interface [polypeptide binding]; other site 383629009226 putative thiostrepton binding site; other site 383629009227 L25 interface [polypeptide binding]; other site 383629009228 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 383629009229 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 383629009230 putative homodimer interface [polypeptide binding]; other site 383629009231 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 383629009232 heterodimer interface [polypeptide binding]; other site 383629009233 homodimer interface [polypeptide binding]; other site 383629009234 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 383629009235 TPR repeat; Region: TPR_11; pfam13414 383629009236 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629009237 binding surface 383629009238 TPR motif; other site 383629009239 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 383629009240 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 383629009241 binding surface 383629009242 TPR motif; other site 383629009243 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 383629009244 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 383629009245 putative acyl-acceptor binding pocket; other site 383629009246 elongation factor Tu; Reviewed; Region: PRK00049 383629009247 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 383629009248 G1 box; other site 383629009249 GEF interaction site [polypeptide binding]; other site 383629009250 GTP/Mg2+ binding site [chemical binding]; other site 383629009251 Switch I region; other site 383629009252 G2 box; other site 383629009253 G3 box; other site 383629009254 Switch II region; other site 383629009255 G4 box; other site 383629009256 G5 box; other site 383629009257 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 383629009258 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 383629009259 Antibiotic Binding Site [chemical binding]; other site 383629009260 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 383629009261 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 383629009262 CAP-like domain; other site 383629009263 active site 383629009264 primary dimer interface [polypeptide binding]; other site 383629009265 Bacterial SH3 domain homologues; Region: SH3b; smart00287 383629009266 short chain dehydrogenase; Provisional; Region: PRK05993 383629009267 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 383629009268 NADP binding site [chemical binding]; other site 383629009269 active site 383629009270 steroid binding site; other site 383629009271 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 383629009272 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 383629009273 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 383629009274 Ligand binding site [chemical binding]; other site 383629009275 Electron transfer flavoprotein domain; Region: ETF; pfam01012 383629009276 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 383629009277 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 383629009278 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 383629009279 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 383629009280 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 383629009281 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 383629009282 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 383629009283 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 383629009284 putative acyl-acceptor binding pocket; other site 383629009285 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 383629009286 dimerization domain swap beta strand [polypeptide binding]; other site 383629009287 regulatory protein interface [polypeptide binding]; other site 383629009288 active site 383629009289 regulatory phosphorylation site [posttranslational modification]; other site 383629009290 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 383629009291 active pocket/dimerization site; other site 383629009292 active site 383629009293 phosphorylation site [posttranslational modification] 383629009294 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 383629009295 AAA domain; Region: AAA_18; pfam13238 383629009296 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 383629009297 Hpr binding site; other site 383629009298 active site 383629009299 homohexamer subunit interaction site [polypeptide binding]; other site 383629009300 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 383629009301 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629009302 HAMP domain; Region: HAMP; pfam00672 383629009303 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 383629009304 dimer interface [polypeptide binding]; other site 383629009305 phosphorylation site [posttranslational modification] 383629009306 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 383629009307 ATP binding site [chemical binding]; other site 383629009308 Mg2+ binding site [ion binding]; other site 383629009309 G-X-G motif; other site 383629009310 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 383629009311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629009312 active site 383629009313 phosphorylation site [posttranslational modification] 383629009314 intermolecular recognition site; other site 383629009315 dimerization interface [polypeptide binding]; other site 383629009316 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 383629009317 DNA binding site [nucleotide binding] 383629009318 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 383629009319 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 383629009320 active site 383629009321 substrate-binding site [chemical binding]; other site 383629009322 metal-binding site [ion binding] 383629009323 ATP binding site [chemical binding]; other site 383629009324 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 383629009325 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 383629009326 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 383629009327 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629009328 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629009329 active site 383629009330 META domain; Region: META; pfam03724 383629009331 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 383629009332 Recombination protein O N terminal; Region: RecO_N; pfam11967 383629009333 Recombination protein O C terminal; Region: RecO_C; pfam02565 383629009334 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 383629009335 GTPase Era; Reviewed; Region: era; PRK00089 383629009336 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 383629009337 G1 box; other site 383629009338 GTP/Mg2+ binding site [chemical binding]; other site 383629009339 Switch I region; other site 383629009340 G2 box; other site 383629009341 Switch II region; other site 383629009342 G3 box; other site 383629009343 G4 box; other site 383629009344 G5 box; other site 383629009345 KH domain; Region: KH_2; pfam07650 383629009346 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 383629009347 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 383629009348 dimerization interface [polypeptide binding]; other site 383629009349 active site 383629009350 metal binding site [ion binding]; metal-binding site 383629009351 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 383629009352 dsRNA binding site [nucleotide binding]; other site 383629009353 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 383629009354 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 383629009355 Catalytic site [active] 383629009356 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 383629009357 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 383629009358 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 383629009359 active site 383629009360 hydrophilic channel; other site 383629009361 dimerization interface [polypeptide binding]; other site 383629009362 catalytic residues [active] 383629009363 active site lid [active] 383629009364 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 383629009365 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 383629009366 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 383629009367 Zn2+ binding site [ion binding]; other site 383629009368 Mg2+ binding site [ion binding]; other site 383629009369 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 383629009370 synthetase active site [active] 383629009371 NTP binding site [chemical binding]; other site 383629009372 metal binding site [ion binding]; metal-binding site 383629009373 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 383629009374 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 383629009375 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 383629009376 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 383629009377 catalytic center binding site [active] 383629009378 ATP binding site [chemical binding]; other site 383629009379 Uncharacterized conserved protein [Function unknown]; Region: COG1432 383629009380 LabA_like proteins; Region: LabA; cd10911 383629009381 putative metal binding site [ion binding]; other site 383629009382 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 383629009383 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 383629009384 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629009385 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 383629009386 Methyltransferase domain; Region: Methyltransf_23; pfam13489 383629009387 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 383629009388 S-adenosylmethionine binding site [chemical binding]; other site 383629009389 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 383629009390 RNA/DNA hybrid binding site [nucleotide binding]; other site 383629009391 active site 383629009392 Predicted membrane protein [Function unknown]; Region: COG2860 383629009393 UPF0126 domain; Region: UPF0126; pfam03458 383629009394 UPF0126 domain; Region: UPF0126; pfam03458 383629009395 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 383629009396 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 383629009397 putative active site [active] 383629009398 substrate binding site [chemical binding]; other site 383629009399 putative cosubstrate binding site; other site 383629009400 catalytic site [active] 383629009401 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 383629009402 substrate binding site [chemical binding]; other site 383629009403 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 383629009404 active site 383629009405 catalytic residues [active] 383629009406 metal binding site [ion binding]; metal-binding site 383629009407 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 383629009408 active site 383629009409 catalytic residues [active] 383629009410 metal binding site [ion binding]; metal-binding site 383629009411 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 383629009412 active site 383629009413 catalytic residues [active] 383629009414 metal binding site [ion binding]; metal-binding site 383629009415 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 383629009416 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 383629009417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629009418 homodimer interface [polypeptide binding]; other site 383629009419 catalytic residue [active] 383629009420 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 383629009421 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 383629009422 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 383629009423 putative dimer interface [polypeptide binding]; other site 383629009424 N-terminal domain interface [polypeptide binding]; other site 383629009425 putative substrate binding pocket (H-site) [chemical binding]; other site 383629009426 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 383629009427 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 383629009428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629009429 catalytic residue [active] 383629009430 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 383629009431 Transglycosylase SLT domain; Region: SLT_2; pfam13406 383629009432 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 383629009433 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629009434 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629009435 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 383629009436 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 383629009437 AAA domain; Region: AAA_23; pfam13476 383629009438 Walker A/P-loop; other site 383629009439 ATP binding site [chemical binding]; other site 383629009440 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 383629009441 Walker B; other site 383629009442 D-loop; other site 383629009443 H-loop/switch region; other site 383629009444 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 383629009445 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629009446 DNA-binding site [nucleotide binding]; DNA binding site 383629009447 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 383629009448 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 383629009449 putative trimer interface [polypeptide binding]; other site 383629009450 putative CoA binding site [chemical binding]; other site 383629009451 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 383629009452 putative trimer interface [polypeptide binding]; other site 383629009453 putative active site [active] 383629009454 putative substrate binding site [chemical binding]; other site 383629009455 putative CoA binding site [chemical binding]; other site 383629009456 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 383629009457 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 383629009458 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 383629009459 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 383629009460 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 383629009461 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 383629009462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 383629009463 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629009464 EamA-like transporter family; Region: EamA; pfam00892 383629009465 EamA-like transporter family; Region: EamA; pfam00892 383629009466 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 383629009467 dimerization interface [polypeptide binding]; other site 383629009468 putative DNA binding site [nucleotide binding]; other site 383629009469 putative Zn2+ binding site [ion binding]; other site 383629009470 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629009471 EamA-like transporter family; Region: EamA; pfam00892 383629009472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629009473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629009474 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 383629009475 dimerization interface [polypeptide binding]; other site 383629009476 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 383629009477 putative deacylase active site [active] 383629009478 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 383629009479 elongation factor G; Reviewed; Region: PRK12740 383629009480 G1 box; other site 383629009481 GTP/Mg2+ binding site [chemical binding]; other site 383629009482 G2 box; other site 383629009483 Switch I region; other site 383629009484 G3 box; other site 383629009485 Switch II region; other site 383629009486 G4 box; other site 383629009487 G5 box; other site 383629009488 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 383629009489 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 383629009490 signal recognition particle protein; Provisional; Region: PRK10867 383629009491 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 383629009492 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 383629009493 P loop; other site 383629009494 GTP binding site [chemical binding]; other site 383629009495 Signal peptide binding domain; Region: SRP_SPB; pfam02978 383629009496 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629009497 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629009498 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 383629009499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 383629009500 chorismate mutase; Provisional; Region: PRK09239 383629009501 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 383629009502 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 383629009503 putative FMN binding site [chemical binding]; other site 383629009504 RimM N-terminal domain; Region: RimM; pfam01782 383629009505 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 383629009506 PRC-barrel domain; Region: PRC; pfam05239 383629009507 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 383629009508 Phosphotransferase enzyme family; Region: APH; pfam01636 383629009509 active site 383629009510 ATP binding site [chemical binding]; other site 383629009511 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 383629009512 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 383629009513 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 383629009514 ATPase MipZ; Region: MipZ; pfam09140 383629009515 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 383629009516 P-loop; other site 383629009517 Magnesium ion binding site [ion binding]; other site 383629009518 exosortase E/protease, VPEID-CTERM system; Region: exo_VPEID; TIGR04162 383629009519 exosortase/archaeosortase family protein; Region: exo_archaeo; TIGR04178 383629009520 CAAX protease self-immunity; Region: Abi; cl00558 383629009521 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 383629009522 cyclase homology domain; Region: CHD; cd07302 383629009523 nucleotidyl binding site; other site 383629009524 metal binding site [ion binding]; metal-binding site 383629009525 dimer interface [polypeptide binding]; other site 383629009526 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629009527 MarR family; Region: MarR_2; pfam12802 383629009528 MarR family; Region: MarR_2; cl17246 383629009529 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 383629009530 fumarylacetoacetase; Region: PLN02856 383629009531 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 383629009532 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 383629009533 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 383629009534 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 383629009535 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 383629009536 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 383629009537 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 383629009538 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629009539 Zn binding site [ion binding]; other site 383629009540 maleylacetoacetate isomerase; Region: maiA; TIGR01262 383629009541 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 383629009542 C-terminal domain interface [polypeptide binding]; other site 383629009543 GSH binding site (G-site) [chemical binding]; other site 383629009544 putative dimer interface [polypeptide binding]; other site 383629009545 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 383629009546 dimer interface [polypeptide binding]; other site 383629009547 N-terminal domain interface [polypeptide binding]; other site 383629009548 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 383629009549 NnrU protein; Region: NnrU; pfam07298 383629009550 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 383629009551 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 383629009552 FeS/SAM binding site; other site 383629009553 HemN C-terminal domain; Region: HemN_C; pfam06969 383629009554 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 383629009555 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 383629009556 DNA Polymerase Y-family; Region: PolY_like; cd03468 383629009557 active site 383629009558 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 383629009559 DNA binding site [nucleotide binding] 383629009560 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 383629009561 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 383629009562 putative active site [active] 383629009563 putative PHP Thumb interface [polypeptide binding]; other site 383629009564 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 383629009565 generic binding surface I; other site 383629009566 generic binding surface II; other site 383629009567 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 383629009568 agmatinase; Region: agmatinase; TIGR01230 383629009569 oligomer interface [polypeptide binding]; other site 383629009570 putative active site [active] 383629009571 Mn binding site [ion binding]; other site 383629009572 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 383629009573 agmatinase; Region: agmatinase; TIGR01230 383629009574 active site 383629009575 metal binding site [ion binding]; metal-binding site 383629009576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629009577 dimer interface [polypeptide binding]; other site 383629009578 conserved gate region; other site 383629009579 ABC-ATPase subunit interface; other site 383629009580 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 383629009581 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 383629009582 Walker A/P-loop; other site 383629009583 ATP binding site [chemical binding]; other site 383629009584 Q-loop/lid; other site 383629009585 ABC transporter signature motif; other site 383629009586 Walker B; other site 383629009587 D-loop; other site 383629009588 H-loop/switch region; other site 383629009589 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 383629009590 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 383629009591 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629009592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629009593 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 383629009594 dimerization interface [polypeptide binding]; other site 383629009595 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 383629009596 TMAO/DMSO reductase; Reviewed; Region: PRK05363 383629009597 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 383629009598 Moco binding site; other site 383629009599 metal coordination site [ion binding]; other site 383629009600 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 383629009601 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 383629009602 active site 383629009603 FMN binding site [chemical binding]; other site 383629009604 substrate binding site [chemical binding]; other site 383629009605 3Fe-4S cluster binding site [ion binding]; other site 383629009606 Domain of unknown function DUF302; Region: DUF302; cl01364 383629009607 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 383629009608 Clp amino terminal domain; Region: Clp_N; pfam02861 383629009609 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 383629009610 Walker A motif; other site 383629009611 ATP binding site [chemical binding]; other site 383629009612 Walker B motif; other site 383629009613 arginine finger; other site 383629009614 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 383629009615 Walker A motif; other site 383629009616 ATP binding site [chemical binding]; other site 383629009617 Walker B motif; other site 383629009618 arginine finger; other site 383629009619 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 383629009620 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 383629009621 active site 383629009622 dimer interface [polypeptide binding]; other site 383629009623 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_23; cd04682 383629009624 nudix motif; other site 383629009625 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 383629009626 active site 383629009627 DNA polymerase IV; Validated; Region: PRK02406 383629009628 DNA binding site [nucleotide binding] 383629009629 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 383629009630 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 383629009631 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 383629009632 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 383629009633 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 383629009634 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 383629009635 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 383629009636 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 383629009637 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 383629009638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629009639 dimer interface [polypeptide binding]; other site 383629009640 conserved gate region; other site 383629009641 putative PBP binding loops; other site 383629009642 ABC-ATPase subunit interface; other site 383629009643 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629009644 dimer interface [polypeptide binding]; other site 383629009645 conserved gate region; other site 383629009646 putative PBP binding loops; other site 383629009647 ABC-ATPase subunit interface; other site 383629009648 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629009649 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 383629009650 acyl-activating enzyme (AAE) consensus motif; other site 383629009651 active site 383629009652 AMP binding site [chemical binding]; other site 383629009653 CoA binding site [chemical binding]; other site 383629009654 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 383629009655 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629009656 Walker A/P-loop; other site 383629009657 ATP binding site [chemical binding]; other site 383629009658 Q-loop/lid; other site 383629009659 ABC transporter signature motif; other site 383629009660 Walker B; other site 383629009661 D-loop; other site 383629009662 H-loop/switch region; other site 383629009663 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 383629009664 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629009665 putative ligand binding site [chemical binding]; other site 383629009666 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629009667 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 383629009668 TM-ABC transporter signature motif; other site 383629009669 Short C-terminal domain; Region: SHOCT; pfam09851 383629009670 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629009671 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 383629009672 TM-ABC transporter signature motif; other site 383629009673 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629009674 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629009675 Walker A/P-loop; other site 383629009676 ATP binding site [chemical binding]; other site 383629009677 Q-loop/lid; other site 383629009678 ABC transporter signature motif; other site 383629009679 Walker B; other site 383629009680 D-loop; other site 383629009681 H-loop/switch region; other site 383629009682 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 383629009683 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629009684 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 383629009685 acyl-activating enzyme (AAE) consensus motif; other site 383629009686 putative AMP binding site [chemical binding]; other site 383629009687 putative active site [active] 383629009688 putative CoA binding site [chemical binding]; other site 383629009689 PAS fold; Region: PAS_7; pfam12860 383629009690 PAS fold; Region: PAS_4; pfam08448 383629009691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629009692 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 383629009693 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 383629009694 ATP binding site [chemical binding]; other site 383629009695 Mg2+ binding site [ion binding]; other site 383629009696 G-X-G motif; other site 383629009697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629009698 Response regulator receiver domain; Region: Response_reg; pfam00072 383629009699 active site 383629009700 phosphorylation site [posttranslational modification] 383629009701 intermolecular recognition site; other site 383629009702 dimerization interface [polypeptide binding]; other site 383629009703 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 383629009704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629009705 active site 383629009706 phosphorylation site [posttranslational modification] 383629009707 intermolecular recognition site; other site 383629009708 dimerization interface [polypeptide binding]; other site 383629009709 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 383629009710 DNA binding site [nucleotide binding] 383629009711 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 383629009712 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 383629009713 catalytic core [active] 383629009714 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 383629009715 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629009716 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 383629009717 C-terminal domain interface [polypeptide binding]; other site 383629009718 GSH binding site (G-site) [chemical binding]; other site 383629009719 dimer interface [polypeptide binding]; other site 383629009720 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 383629009721 dimer interface [polypeptide binding]; other site 383629009722 substrate binding pocket (H-site) [chemical binding]; other site 383629009723 N-terminal domain interface [polypeptide binding]; other site 383629009724 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 383629009725 active site 383629009726 ligand binding site [chemical binding]; other site 383629009727 homodimer interface [polypeptide binding]; other site 383629009728 NAD(P) binding site [chemical binding]; other site 383629009729 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629009730 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 383629009731 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 383629009732 cyclase homology domain; Region: CHD; cd07302 383629009733 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 383629009734 nucleotidyl binding site; other site 383629009735 metal binding site [ion binding]; metal-binding site 383629009736 dimer interface [polypeptide binding]; other site 383629009737 RmuC family; Region: RmuC; pfam02646 383629009738 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 383629009739 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 383629009740 ATP binding site [chemical binding]; other site 383629009741 Mg2+ binding site [ion binding]; other site 383629009742 G-X-G motif; other site 383629009743 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 383629009744 ATP binding site [chemical binding]; other site 383629009745 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 383629009746 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 383629009747 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 383629009748 ABC-ATPase subunit interface; other site 383629009749 dimer interface [polypeptide binding]; other site 383629009750 putative PBP binding regions; other site 383629009751 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 383629009752 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 383629009753 ABC-ATPase subunit interface; other site 383629009754 dimer interface [polypeptide binding]; other site 383629009755 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 383629009756 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 383629009757 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 383629009758 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 383629009759 intersubunit interface [polypeptide binding]; other site 383629009760 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 383629009761 intersubunit interface [polypeptide binding]; other site 383629009762 active site 383629009763 catalytic residue [active] 383629009764 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 383629009765 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629009766 NAD(P) binding site [chemical binding]; other site 383629009767 catalytic residues [active] 383629009768 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 383629009769 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 383629009770 NAD(P) binding site [chemical binding]; other site 383629009771 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 383629009772 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 383629009773 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 383629009774 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 383629009775 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 383629009776 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 383629009777 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 383629009778 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 383629009779 lipoprotein signal peptidase; Provisional; Region: PRK14787 383629009780 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 383629009781 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 383629009782 purine monophosphate binding site [chemical binding]; other site 383629009783 dimer interface [polypeptide binding]; other site 383629009784 putative catalytic residues [active] 383629009785 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 383629009786 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 383629009787 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cd00447 383629009788 putative RNA binding site [nucleotide binding]; other site 383629009789 16S rRNA methyltransferase B; Provisional; Region: PRK10901 383629009790 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 383629009791 S-adenosylmethionine binding site [chemical binding]; other site 383629009792 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 383629009793 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 383629009794 NIPSNAP; Region: NIPSNAP; pfam07978 383629009795 dihydrodipicolinate reductase; Provisional; Region: PRK00048 383629009796 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 383629009797 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 383629009798 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 383629009799 Predicted periplasmic protein [Function unknown]; Region: COG3698 383629009800 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 383629009801 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 383629009802 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 383629009803 RNA binding site [nucleotide binding]; other site 383629009804 active site 383629009805 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 383629009806 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629009807 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 383629009808 16S/18S rRNA binding site [nucleotide binding]; other site 383629009809 S13e-L30e interaction site [polypeptide binding]; other site 383629009810 25S rRNA binding site [nucleotide binding]; other site 383629009811 Methyltransferase domain; Region: Methyltransf_31; pfam13847 383629009812 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 383629009813 S-adenosylmethionine binding site [chemical binding]; other site 383629009814 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 383629009815 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 383629009816 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 383629009817 RNase E interface [polypeptide binding]; other site 383629009818 trimer interface [polypeptide binding]; other site 383629009819 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 383629009820 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 383629009821 RNase E interface [polypeptide binding]; other site 383629009822 trimer interface [polypeptide binding]; other site 383629009823 active site 383629009824 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 383629009825 putative nucleic acid binding region [nucleotide binding]; other site 383629009826 G-X-X-G motif; other site 383629009827 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 383629009828 RNA binding site [nucleotide binding]; other site 383629009829 domain interface; other site 383629009830 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 383629009831 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 383629009832 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 383629009833 dimer interface [polypeptide binding]; other site 383629009834 decamer (pentamer of dimers) interface [polypeptide binding]; other site 383629009835 catalytic triad [active] 383629009836 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 383629009837 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629009838 NAD binding site [chemical binding]; other site 383629009839 catalytic residues [active] 383629009840 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 383629009841 active site 383629009842 metal binding site [ion binding]; metal-binding site 383629009843 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 383629009844 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 383629009845 GDP-Fucose binding site [chemical binding]; other site 383629009846 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 383629009847 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 383629009848 active site 383629009849 SnoaL-like domain; Region: SnoaL_2; pfam12680 383629009850 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 383629009851 active site 383629009852 catalytic triad [active] 383629009853 oxyanion hole [active] 383629009854 Predicted permeases [General function prediction only]; Region: RarD; COG2962 383629009855 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629009856 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629009857 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629009858 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629009859 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629009860 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629009861 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 383629009862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629009863 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629009864 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629009865 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629009866 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629009867 Uncharacterized conserved protein [Function unknown]; Region: COG3791 383629009868 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 383629009869 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629009870 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 383629009871 non-specific DNA binding site [nucleotide binding]; other site 383629009872 salt bridge; other site 383629009873 sequence-specific DNA binding site [nucleotide binding]; other site 383629009874 Cupin domain; Region: Cupin_2; pfam07883 383629009875 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 383629009876 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 383629009877 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 383629009878 dimer interface [polypeptide binding]; other site 383629009879 active site 383629009880 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 383629009881 anti sigma factor interaction site; other site 383629009882 regulatory phosphorylation site [posttranslational modification]; other site 383629009883 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 383629009884 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 383629009885 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 383629009886 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 383629009887 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 383629009888 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 383629009889 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 383629009890 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 383629009891 Uncharacterized conserved protein [Function unknown]; Region: COG2835 383629009892 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 383629009893 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 383629009894 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 383629009895 Amidase; Region: Amidase; cl11426 383629009896 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 383629009897 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 383629009898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629009899 homodimer interface [polypeptide binding]; other site 383629009900 catalytic residue [active] 383629009901 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 383629009902 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 383629009903 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 383629009904 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 383629009905 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 383629009906 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 383629009907 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 383629009908 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629009909 catalytic residue [active] 383629009910 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 383629009911 putative catalytic site [active] 383629009912 putative phosphate binding site [ion binding]; other site 383629009913 active site 383629009914 metal binding site A [ion binding]; metal-binding site 383629009915 DNA binding site [nucleotide binding] 383629009916 putative AP binding site [nucleotide binding]; other site 383629009917 putative metal binding site B [ion binding]; other site 383629009918 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 383629009919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629009920 active site 383629009921 phosphorylation site [posttranslational modification] 383629009922 intermolecular recognition site; other site 383629009923 dimerization interface [polypeptide binding]; other site 383629009924 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 383629009925 DNA binding site [nucleotide binding] 383629009926 GTP cyclohydrolase; Provisional; Region: PRK08815 383629009927 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 383629009928 dimerization interface [polypeptide binding]; other site 383629009929 active site 383629009930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 383629009931 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 383629009932 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 383629009933 catalytic residue [active] 383629009934 Gram-negative porin; Region: Porin_4; pfam13609 383629009935 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 383629009936 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 383629009937 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 383629009938 HIGH motif; other site 383629009939 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 383629009940 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 383629009941 active site 383629009942 KMSKS motif; other site 383629009943 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 383629009944 tRNA binding surface [nucleotide binding]; other site 383629009945 Lipopolysaccharide-assembly; Region: LptE; pfam04390 383629009946 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 383629009947 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 383629009948 putative C-terminal domain interface [polypeptide binding]; other site 383629009949 putative GSH binding site (G-site) [chemical binding]; other site 383629009950 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629009951 putative dimer interface [polypeptide binding]; other site 383629009952 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 383629009953 N-terminal domain interface [polypeptide binding]; other site 383629009954 substrate binding pocket (H-site) [chemical binding]; other site 383629009955 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 383629009956 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 383629009957 substrate binding site [chemical binding]; other site 383629009958 oxyanion hole (OAH) forming residues; other site 383629009959 trimer interface [polypeptide binding]; other site 383629009960 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 383629009961 classical (c) SDRs; Region: SDR_c; cd05233 383629009962 NAD(P) binding site [chemical binding]; other site 383629009963 active site 383629009964 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 383629009965 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 383629009966 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 383629009967 active site 383629009968 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 383629009969 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 383629009970 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 383629009971 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 383629009972 Thioredoxin; Region: Thioredoxin_4; pfam13462 383629009973 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 383629009974 Protein of unknown function (DUF721); Region: DUF721; pfam05258 383629009975 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 383629009976 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 383629009977 minor groove reading motif; other site 383629009978 helix-hairpin-helix signature motif; other site 383629009979 substrate binding pocket [chemical binding]; other site 383629009980 active site 383629009981 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 383629009982 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 383629009983 DNA binding and oxoG recognition site [nucleotide binding] 383629009984 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 383629009985 Fatty acid desaturase; Region: FA_desaturase; pfam00487 383629009986 Di-iron ligands [ion binding]; other site 383629009987 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 383629009988 cyclase homology domain; Region: CHD; cd07302 383629009989 nucleotidyl binding site; other site 383629009990 metal binding site [ion binding]; metal-binding site 383629009991 dimer interface [polypeptide binding]; other site 383629009992 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 383629009993 DNA methylase; Region: N6_N4_Mtase; pfam01555 383629009994 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 383629009995 RNA/DNA hybrid binding site [nucleotide binding]; other site 383629009996 active site 383629009997 Domain of unknown function (DUF427); Region: DUF427; pfam04248 383629009998 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 383629009999 cyclase homology domain; Region: CHD; cd07302 383629010000 nucleotidyl binding site; other site 383629010001 metal binding site [ion binding]; metal-binding site 383629010002 dimer interface [polypeptide binding]; other site 383629010003 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 383629010004 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 383629010005 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 383629010006 tetramer interface [polypeptide binding]; other site 383629010007 TPP-binding site [chemical binding]; other site 383629010008 heterodimer interface [polypeptide binding]; other site 383629010009 phosphorylation loop region [posttranslational modification] 383629010010 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 383629010011 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 383629010012 alpha subunit interface [polypeptide binding]; other site 383629010013 TPP binding site [chemical binding]; other site 383629010014 heterodimer interface [polypeptide binding]; other site 383629010015 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 383629010016 BCCT family transporter; Region: BCCT; pfam02028 383629010017 BCCT family transporter; Region: BCCT; pfam02028 383629010018 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 383629010019 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 383629010020 Walker A/P-loop; other site 383629010021 ATP binding site [chemical binding]; other site 383629010022 Q-loop/lid; other site 383629010023 ABC transporter signature motif; other site 383629010024 Walker B; other site 383629010025 D-loop; other site 383629010026 H-loop/switch region; other site 383629010027 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 383629010028 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 383629010029 Walker A/P-loop; other site 383629010030 ATP binding site [chemical binding]; other site 383629010031 Q-loop/lid; other site 383629010032 ABC transporter signature motif; other site 383629010033 Walker B; other site 383629010034 D-loop; other site 383629010035 H-loop/switch region; other site 383629010036 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 383629010037 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 383629010038 TM-ABC transporter signature motif; other site 383629010039 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 383629010040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629010041 TM-ABC transporter signature motif; other site 383629010042 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629010043 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 383629010044 putative ligand binding site [chemical binding]; other site 383629010045 UreD urease accessory protein; Region: UreD; pfam01774 383629010046 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 383629010047 alpha-gamma subunit interface [polypeptide binding]; other site 383629010048 beta-gamma subunit interface [polypeptide binding]; other site 383629010049 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 383629010050 gamma-beta subunit interface [polypeptide binding]; other site 383629010051 alpha-beta subunit interface [polypeptide binding]; other site 383629010052 urease subunit alpha; Reviewed; Region: ureC; PRK13207 383629010053 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 383629010054 subunit interactions [polypeptide binding]; other site 383629010055 active site 383629010056 flap region; other site 383629010057 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 383629010058 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 383629010059 dimer interface [polypeptide binding]; other site 383629010060 catalytic residues [active] 383629010061 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 383629010062 UreF; Region: UreF; pfam01730 383629010063 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 383629010064 RTX N-terminal domain; Region: RTX; pfam02382 383629010065 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629010066 RTX toxin acyltransferase family; Region: HlyC; pfam02794 383629010067 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 383629010068 active site 383629010069 catalytic triad [active] 383629010070 oxyanion hole [active] 383629010071 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629010072 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629010073 DNA binding site [nucleotide binding] 383629010074 domain linker motif; other site 383629010075 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 383629010076 putative dimerization interface [polypeptide binding]; other site 383629010077 putative ligand binding site [chemical binding]; other site 383629010078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 383629010079 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 383629010080 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 383629010081 active site 383629010082 DctM-like transporters; Region: DctM; pfam06808 383629010083 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 383629010084 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 383629010085 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 383629010086 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 383629010087 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 383629010088 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 383629010089 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 383629010090 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 383629010091 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 383629010092 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 383629010093 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 383629010094 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 383629010095 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 383629010096 FeS/SAM binding site; other site 383629010097 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 383629010098 AAA domain; Region: AAA_33; pfam13671 383629010099 P-loop motif; other site 383629010100 ATP binding site [chemical binding]; other site 383629010101 Chloramphenicol (Cm) binding site [chemical binding]; other site 383629010102 catalytic residue [active] 383629010103 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 383629010104 cytochrome b; Provisional; Region: CYTB; MTH00191 383629010105 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 383629010106 intrachain domain interface; other site 383629010107 interchain domain interface [polypeptide binding]; other site 383629010108 heme bH binding site [chemical binding]; other site 383629010109 Qi binding site; other site 383629010110 heme bL binding site [chemical binding]; other site 383629010111 Qo binding site; other site 383629010112 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 383629010113 interchain domain interface [polypeptide binding]; other site 383629010114 intrachain domain interface; other site 383629010115 Qi binding site; other site 383629010116 Qo binding site; other site 383629010117 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 383629010118 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 383629010119 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 383629010120 [2Fe-2S] cluster binding site [ion binding]; other site 383629010121 putative glutathione S-transferase; Provisional; Region: PRK10357 383629010122 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 383629010123 putative C-terminal domain interface [polypeptide binding]; other site 383629010124 putative GSH binding site (G-site) [chemical binding]; other site 383629010125 putative dimer interface [polypeptide binding]; other site 383629010126 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 383629010127 dimer interface [polypeptide binding]; other site 383629010128 N-terminal domain interface [polypeptide binding]; other site 383629010129 putative substrate binding pocket (H-site) [chemical binding]; other site 383629010130 riboflavin synthase subunit beta; Provisional; Region: PRK12419 383629010131 active site 383629010132 homopentamer interface [polypeptide binding]; other site 383629010133 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 383629010134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629010135 Walker A/P-loop; other site 383629010136 ATP binding site [chemical binding]; other site 383629010137 Q-loop/lid; other site 383629010138 ABC transporter signature motif; other site 383629010139 Walker B; other site 383629010140 D-loop; other site 383629010141 H-loop/switch region; other site 383629010142 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 383629010143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 383629010144 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 383629010145 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 383629010146 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 383629010147 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 383629010148 Tetramer interface [polypeptide binding]; other site 383629010149 active site 383629010150 FMN-binding site [chemical binding]; other site 383629010151 malonyl-CoA synthase; Validated; Region: PRK07514 383629010152 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 383629010153 acyl-activating enzyme (AAE) consensus motif; other site 383629010154 active site 383629010155 AMP binding site [chemical binding]; other site 383629010156 CoA binding site [chemical binding]; other site 383629010157 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 383629010158 EamA-like transporter family; Region: EamA; pfam00892 383629010159 Transcriptional regulators [Transcription]; Region: MarR; COG1846 383629010160 MarR family; Region: MarR; pfam01047 383629010161 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 383629010162 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 383629010163 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 383629010164 homodimer interface [polypeptide binding]; other site 383629010165 substrate-cofactor binding pocket; other site 383629010166 catalytic residue [active] 383629010167 Transcriptional regulators [Transcription]; Region: MarR; COG1846 383629010168 MarR family; Region: MarR_2; pfam12802 383629010169 osmolarity response regulator; Provisional; Region: ompR; PRK09468 383629010170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629010171 active site 383629010172 phosphorylation site [posttranslational modification] 383629010173 intermolecular recognition site; other site 383629010174 dimerization interface [polypeptide binding]; other site 383629010175 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 383629010176 DNA binding site [nucleotide binding] 383629010177 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 383629010178 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 383629010179 putative active site [active] 383629010180 Zn binding site [ion binding]; other site 383629010181 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 383629010182 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 383629010183 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 383629010184 substrate binding pocket [chemical binding]; other site 383629010185 chain length determination region; other site 383629010186 substrate-Mg2+ binding site; other site 383629010187 catalytic residues [active] 383629010188 aspartate-rich region 1; other site 383629010189 active site lid residues [active] 383629010190 aspartate-rich region 2; other site 383629010191 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 383629010192 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 383629010193 TPP-binding site; other site 383629010194 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 383629010195 PYR/PP interface [polypeptide binding]; other site 383629010196 dimer interface [polypeptide binding]; other site 383629010197 TPP binding site [chemical binding]; other site 383629010198 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 383629010199 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 383629010200 putative NAD(P) binding site [chemical binding]; other site 383629010201 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 383629010202 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 383629010203 S-adenosylmethionine binding site [chemical binding]; other site 383629010204 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 383629010205 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 383629010206 substrate binding site [chemical binding]; other site 383629010207 oxyanion hole (OAH) forming residues; other site 383629010208 trimer interface [polypeptide binding]; other site 383629010209 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 383629010210 CoA binding domain; Region: CoA_binding_2; pfam13380 383629010211 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 383629010212 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 383629010213 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629010214 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629010215 active site 383629010216 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629010217 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 383629010218 conserved cys residue [active] 383629010219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629010220 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 383629010221 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 383629010222 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 383629010223 active site 383629010224 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 383629010225 AMP nucleosidase; Provisional; Region: PRK08292 383629010226 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 383629010227 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 383629010228 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 383629010229 IHF dimer interface [polypeptide binding]; other site 383629010230 IHF - DNA interface [nucleotide binding]; other site 383629010231 EamA-like transporter family; Region: EamA; pfam00892 383629010232 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 383629010233 EamA-like transporter family; Region: EamA; pfam00892 383629010234 methionine sulfoxide reductase B; Provisional; Region: PRK00222 383629010235 SelR domain; Region: SelR; pfam01641 383629010236 methionine sulfoxide reductase A; Provisional; Region: PRK14054 383629010237 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 383629010238 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 383629010239 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 383629010240 epoxyqueuosine reductase; Region: TIGR00276 383629010241 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 383629010242 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 383629010243 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 383629010244 NAD(P) binding site [chemical binding]; other site 383629010245 2-amino-3-ketobutyrate coenzyme A ligase; Provisional; Region: PRK06939 383629010246 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 383629010247 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629010248 catalytic residue [active] 383629010249 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629010250 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 383629010251 non-specific DNA binding site [nucleotide binding]; other site 383629010252 salt bridge; other site 383629010253 sequence-specific DNA binding site [nucleotide binding]; other site 383629010254 Cupin domain; Region: Cupin_2; cl17218 383629010255 beta-ketothiolase; Provisional; Region: PRK09051 383629010256 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 383629010257 dimer interface [polypeptide binding]; other site 383629010258 active site 383629010259 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 383629010260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629010261 dimer interface [polypeptide binding]; other site 383629010262 conserved gate region; other site 383629010263 putative PBP binding loops; other site 383629010264 ABC-ATPase subunit interface; other site 383629010265 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 383629010266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629010267 dimer interface [polypeptide binding]; other site 383629010268 conserved gate region; other site 383629010269 putative PBP binding loops; other site 383629010270 ABC-ATPase subunit interface; other site 383629010271 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 383629010272 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 383629010273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629010274 Walker A/P-loop; other site 383629010275 ATP binding site [chemical binding]; other site 383629010276 Q-loop/lid; other site 383629010277 ABC transporter signature motif; other site 383629010278 Walker B; other site 383629010279 D-loop; other site 383629010280 H-loop/switch region; other site 383629010281 TOBE domain; Region: TOBE_2; pfam08402 383629010282 putative aminotransferase; Validated; Region: PRK07480 383629010283 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 383629010284 inhibitor-cofactor binding pocket; inhibition site 383629010285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629010286 catalytic residue [active] 383629010287 Transcriptional regulators [Transcription]; Region: GntR; COG1802 383629010288 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629010289 DNA-binding site [nucleotide binding]; DNA binding site 383629010290 FCD domain; Region: FCD; pfam07729 383629010291 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 383629010292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 383629010293 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 383629010294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629010295 Walker A/P-loop; other site 383629010296 ATP binding site [chemical binding]; other site 383629010297 Q-loop/lid; other site 383629010298 ABC transporter signature motif; other site 383629010299 Walker B; other site 383629010300 D-loop; other site 383629010301 H-loop/switch region; other site 383629010302 TOBE domain; Region: TOBE_2; pfam08402 383629010303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629010304 dimer interface [polypeptide binding]; other site 383629010305 conserved gate region; other site 383629010306 putative PBP binding loops; other site 383629010307 ABC-ATPase subunit interface; other site 383629010308 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 383629010309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629010310 dimer interface [polypeptide binding]; other site 383629010311 conserved gate region; other site 383629010312 putative PBP binding loops; other site 383629010313 ABC-ATPase subunit interface; other site 383629010314 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629010315 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 383629010316 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 383629010317 NAD binding site [chemical binding]; other site 383629010318 homodimer interface [polypeptide binding]; other site 383629010319 active site 383629010320 substrate binding site [chemical binding]; other site 383629010321 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 383629010322 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 383629010323 active site 383629010324 tetramer interface; other site 383629010325 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 383629010326 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 383629010327 Ligand binding site; other site 383629010328 oligomer interface; other site 383629010329 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 383629010330 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 383629010331 active site 383629010332 ABC-2 type transporter; Region: ABC2_membrane; cl17235 383629010333 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 383629010334 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 383629010335 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 383629010336 nucleotide binding site [chemical binding]; other site 383629010337 NEF interaction site [polypeptide binding]; other site 383629010338 SBD interface [polypeptide binding]; other site 383629010339 chaperone protein DnaJ; Provisional; Region: PRK10767 383629010340 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 383629010341 HSP70 interaction site [polypeptide binding]; other site 383629010342 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 383629010343 substrate binding site [polypeptide binding]; other site 383629010344 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 383629010345 Zn binding sites [ion binding]; other site 383629010346 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 383629010347 dimer interface [polypeptide binding]; other site 383629010348 hypothetical protein; Reviewed; Region: PRK00024 383629010349 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 383629010350 MPN+ (JAMM) motif; other site 383629010351 Zinc-binding site [ion binding]; other site 383629010352 PBP superfamily domain; Region: PBP_like_2; cl17296 383629010353 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 383629010354 ligand binding site [chemical binding]; other site 383629010355 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 383629010356 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 383629010357 SEC-C motif; Region: SEC-C; pfam02810 383629010358 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 383629010359 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 383629010360 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 383629010361 heterotetramer interface [polypeptide binding]; other site 383629010362 active site pocket [active] 383629010363 cleavage site 383629010364 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 383629010365 active site 383629010366 8-oxo-dGMP binding site [chemical binding]; other site 383629010367 nudix motif; other site 383629010368 metal binding site [ion binding]; metal-binding site 383629010369 translation initiation factor IF-2; Region: IF-2; TIGR00487 383629010370 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 383629010371 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 383629010372 G1 box; other site 383629010373 putative GEF interaction site [polypeptide binding]; other site 383629010374 GTP/Mg2+ binding site [chemical binding]; other site 383629010375 Switch I region; other site 383629010376 G2 box; other site 383629010377 G3 box; other site 383629010378 Switch II region; other site 383629010379 G4 box; other site 383629010380 G5 box; other site 383629010381 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 383629010382 Translation-initiation factor 2; Region: IF-2; pfam11987 383629010383 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 383629010384 hypothetical protein; Provisional; Region: PRK09190 383629010385 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 383629010386 putative RNA binding cleft [nucleotide binding]; other site 383629010387 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 383629010388 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 383629010389 NusA N-terminal domain; Region: NusA_N; pfam08529 383629010390 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 383629010391 RNA binding site [nucleotide binding]; other site 383629010392 homodimer interface [polypeptide binding]; other site 383629010393 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 383629010394 G-X-X-G motif; other site 383629010395 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 383629010396 G-X-X-G motif; other site 383629010397 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 383629010398 ribosome maturation protein RimP; Reviewed; Region: PRK00092 383629010399 Sm and related proteins; Region: Sm_like; cl00259 383629010400 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 383629010401 putative oligomer interface [polypeptide binding]; other site 383629010402 putative RNA binding site [nucleotide binding]; other site 383629010403 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 383629010404 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629010405 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 383629010406 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 383629010407 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 383629010408 S-adenosylmethionine binding site [chemical binding]; other site 383629010409 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 383629010410 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 383629010411 MarR family; Region: MarR_2; pfam12802 383629010412 nitrilase; Region: PLN02798 383629010413 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 383629010414 putative active site [active] 383629010415 catalytic triad [active] 383629010416 dimer interface [polypeptide binding]; other site 383629010417 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 383629010418 GSH binding site [chemical binding]; other site 383629010419 catalytic residues [active] 383629010420 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 383629010421 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 383629010422 active site 383629010423 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 383629010424 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 383629010425 ferrochelatase; Reviewed; Region: hemH; PRK00035 383629010426 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 383629010427 C-terminal domain interface [polypeptide binding]; other site 383629010428 active site 383629010429 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 383629010430 active site 383629010431 N-terminal domain interface [polypeptide binding]; other site 383629010432 hypothetical protein; Provisional; Region: PRK06148 383629010433 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 383629010434 active site 383629010435 ATP binding site [chemical binding]; other site 383629010436 Peptidase family M23; Region: Peptidase_M23; pfam01551 383629010437 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 383629010438 inhibitor-cofactor binding pocket; inhibition site 383629010439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629010440 catalytic residue [active] 383629010441 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 383629010442 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 383629010443 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 383629010444 Ion transport protein; Region: Ion_trans; pfam00520 383629010445 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 383629010446 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 383629010447 S-adenosylmethionine binding site [chemical binding]; other site 383629010448 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 383629010449 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629010450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629010451 Walker A/P-loop; other site 383629010452 ATP binding site [chemical binding]; other site 383629010453 Q-loop/lid; other site 383629010454 ABC transporter signature motif; other site 383629010455 Walker B; other site 383629010456 D-loop; other site 383629010457 H-loop/switch region; other site 383629010458 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 383629010459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629010460 Walker A/P-loop; other site 383629010461 ATP binding site [chemical binding]; other site 383629010462 Q-loop/lid; other site 383629010463 ABC transporter signature motif; other site 383629010464 Walker B; other site 383629010465 D-loop; other site 383629010466 H-loop/switch region; other site 383629010467 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 383629010468 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 383629010469 active site 383629010470 NTP binding site [chemical binding]; other site 383629010471 metal binding triad [ion binding]; metal-binding site 383629010472 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 383629010473 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 383629010474 putative active site [active] 383629010475 putative CoA binding site [chemical binding]; other site 383629010476 nudix motif; other site 383629010477 metal binding site [ion binding]; metal-binding site 383629010478 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 383629010479 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 383629010480 dimerization interface [polypeptide binding]; other site 383629010481 domain crossover interface; other site 383629010482 redox-dependent activation switch; other site 383629010483 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 383629010484 nudix motif; other site 383629010485 Response regulator receiver domain; Region: Response_reg; pfam00072 383629010486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629010487 active site 383629010488 phosphorylation site [posttranslational modification] 383629010489 intermolecular recognition site; other site 383629010490 dimerization interface [polypeptide binding]; other site 383629010491 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 383629010492 Hpt domain; Region: Hpt; pfam01627 383629010493 putative binding surface; other site 383629010494 active site 383629010495 threonine dehydratase; Validated; Region: PRK08639 383629010496 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 383629010497 tetramer interface [polypeptide binding]; other site 383629010498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629010499 catalytic residue [active] 383629010500 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 383629010501 argininosuccinate synthase; Provisional; Region: PRK13820 383629010502 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 383629010503 ANP binding site [chemical binding]; other site 383629010504 Substrate Binding Site II [chemical binding]; other site 383629010505 Substrate Binding Site I [chemical binding]; other site 383629010506 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 383629010507 SCP-2 sterol transfer family; Region: SCP2; pfam02036 383629010508 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 383629010509 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 383629010510 homodimer interface [polypeptide binding]; other site 383629010511 substrate-cofactor binding pocket; other site 383629010512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629010513 catalytic residue [active] 383629010514 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 383629010515 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 383629010516 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 383629010517 substrate binding site [chemical binding]; other site 383629010518 dimer interface [polypeptide binding]; other site 383629010519 ATP binding site [chemical binding]; other site 383629010520 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 383629010521 Malic enzyme, N-terminal domain; Region: malic; pfam00390 383629010522 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 383629010523 putative NAD(P) binding site [chemical binding]; other site 383629010524 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 383629010525 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 383629010526 MutS domain I; Region: MutS_I; pfam01624 383629010527 MutS domain II; Region: MutS_II; pfam05188 383629010528 MutS domain III; Region: MutS_III; pfam05192 383629010529 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 383629010530 Walker A/P-loop; other site 383629010531 ATP binding site [chemical binding]; other site 383629010532 Q-loop/lid; other site 383629010533 ABC transporter signature motif; other site 383629010534 Walker B; other site 383629010535 D-loop; other site 383629010536 H-loop/switch region; other site 383629010537 GrpE; Region: GrpE; pfam01025 383629010538 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 383629010539 dimer interface [polypeptide binding]; other site 383629010540 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 383629010541 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 383629010542 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 383629010543 ribonuclease PH; Reviewed; Region: rph; PRK00173 383629010544 Ribonuclease PH; Region: RNase_PH_bact; cd11362 383629010545 hexamer interface [polypeptide binding]; other site 383629010546 active site 383629010547 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 383629010548 active site 383629010549 dimerization interface [polypeptide binding]; other site 383629010550 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 383629010551 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 383629010552 FeS/SAM binding site; other site 383629010553 HemN C-terminal domain; Region: HemN_C; pfam06969 383629010554 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 383629010555 ParB-like nuclease domain; Region: ParBc; pfam02195 383629010556 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 383629010557 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 383629010558 P-loop; other site 383629010559 Magnesium ion binding site [ion binding]; other site 383629010560 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 383629010561 Magnesium ion binding site [ion binding]; other site 383629010562 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 383629010563 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 383629010564 S-adenosylmethionine binding site [chemical binding]; other site 383629010565 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 383629010566 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 383629010567 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 383629010568 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 383629010569 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 383629010570 trmE is a tRNA modification GTPase; Region: trmE; cd04164 383629010571 G1 box; other site 383629010572 GTP/Mg2+ binding site [chemical binding]; other site 383629010573 Switch I region; other site 383629010574 G2 box; other site 383629010575 Switch II region; other site 383629010576 G3 box; other site 383629010577 G4 box; other site 383629010578 G5 box; other site 383629010579 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 383629010580 transcription termination factor Rho; Provisional; Region: rho; PRK09376 383629010581 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 383629010582 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 383629010583 RNA binding site [nucleotide binding]; other site 383629010584 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 383629010585 multimer interface [polypeptide binding]; other site 383629010586 Walker A motif; other site 383629010587 ATP binding site [chemical binding]; other site 383629010588 Walker B motif; other site 383629010589 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 383629010590 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 383629010591 active site 383629010592 dimer interface [polypeptide binding]; other site 383629010593 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 383629010594 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 383629010595 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 383629010596 shikimate binding site; other site 383629010597 NAD(P) binding site [chemical binding]; other site 383629010598 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 383629010599 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 383629010600 CoA-binding site [chemical binding]; other site 383629010601 ATP-binding [chemical binding]; other site 383629010602 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 383629010603 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 383629010604 active site 383629010605 catalytic site [active] 383629010606 substrate binding site [chemical binding]; other site 383629010607 Preprotein translocase subunit SecB; Region: SecB; pfam02556 383629010608 SecA binding site; other site 383629010609 Preprotein binding site; other site 383629010610 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 383629010611 Tim44-like domain; Region: Tim44; pfam04280 383629010612 MltA specific insert domain; Region: MltA; smart00925 383629010613 3D domain; Region: 3D; pfam06725 383629010614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 383629010615 Smr domain; Region: Smr; pfam01713 383629010616 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 383629010617 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 383629010618 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 383629010619 Walker A motif; other site 383629010620 ATP binding site [chemical binding]; other site 383629010621 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 383629010622 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 383629010623 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 383629010624 active site 383629010625 HslU subunit interaction site [polypeptide binding]; other site 383629010626 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 383629010627 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 383629010628 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 383629010629 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 383629010630 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 383629010631 catalytic residues [active] 383629010632 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 383629010633 Part of AAA domain; Region: AAA_19; pfam13245 383629010634 Family description; Region: UvrD_C_2; pfam13538 383629010635 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 383629010636 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 383629010637 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 383629010638 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 383629010639 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 383629010640 Substrate binding site; other site 383629010641 metal-binding site 383629010642 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 383629010643 Phosphotransferase enzyme family; Region: APH; pfam01636 383629010644 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 383629010645 PAS fold; Region: PAS_7; pfam12860 383629010646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629010647 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 383629010648 dimer interface [polypeptide binding]; other site 383629010649 phosphorylation site [posttranslational modification] 383629010650 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 383629010651 ATP binding site [chemical binding]; other site 383629010652 Mg2+ binding site [ion binding]; other site 383629010653 G-X-G motif; other site 383629010654 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 383629010655 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 383629010656 Cu(I) binding site [ion binding]; other site 383629010657 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 383629010658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629010659 active site 383629010660 phosphorylation site [posttranslational modification] 383629010661 intermolecular recognition site; other site 383629010662 dimerization interface [polypeptide binding]; other site 383629010663 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 383629010664 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 383629010665 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 383629010666 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 383629010667 homotetramer interface [polypeptide binding]; other site 383629010668 ligand binding site [chemical binding]; other site 383629010669 catalytic site [active] 383629010670 NAD binding site [chemical binding]; other site 383629010671 PRC-barrel domain; Region: PRC; pfam05239 383629010672 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 383629010673 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 383629010674 EVE domain; Region: EVE; cl00728 383629010675 YciI-like protein; Reviewed; Region: PRK12863 383629010676 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 383629010677 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 383629010678 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 383629010679 UGMP family protein; Validated; Region: PRK09604 383629010680 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 383629010681 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 383629010682 active site 383629010683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 383629010684 HemY protein N-terminus; Region: HemY_N; pfam07219 383629010685 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 383629010686 choline dehydrogenase; Validated; Region: PRK02106 383629010687 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 383629010688 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 383629010689 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 383629010690 dimer interface [polypeptide binding]; other site 383629010691 acyl-activating enzyme (AAE) consensus motif; other site 383629010692 putative active site [active] 383629010693 AMP binding site [chemical binding]; other site 383629010694 putative CoA binding site [chemical binding]; other site 383629010695 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 383629010696 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 383629010697 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 383629010698 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 383629010699 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 383629010700 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 383629010701 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 383629010702 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 383629010703 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 383629010704 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 383629010705 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 383629010706 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 383629010707 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 383629010708 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 383629010709 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 383629010710 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 383629010711 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 383629010712 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 383629010713 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 383629010714 Uncharacterized conserved protein [Function unknown]; Region: COG3334 383629010715 flagellar motor protein MotA; Validated; Region: PRK09110 383629010716 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 383629010717 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 383629010718 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629010719 catalytic residue [active] 383629010720 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 383629010721 FHIPEP family; Region: FHIPEP; pfam00771 383629010722 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 383629010723 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 383629010724 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 383629010725 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 383629010726 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 383629010727 SAF-like; Region: SAF_2; pfam13144 383629010728 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 383629010729 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 383629010730 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 383629010731 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 383629010732 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 383629010733 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 383629010734 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 383629010735 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 383629010736 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 383629010737 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 383629010738 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 383629010739 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 383629010740 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 383629010741 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 383629010742 Walker A motif; other site 383629010743 ATP binding site [chemical binding]; other site 383629010744 Walker B motif; other site 383629010745 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 383629010746 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 383629010747 flagellin; Reviewed; Region: PRK12687 383629010748 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 383629010749 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 383629010750 Rod binding protein; Region: Rod-binding; pfam10135 383629010751 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 383629010752 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 383629010753 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 383629010754 Phosphotransferase enzyme family; Region: APH; pfam01636 383629010755 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 383629010756 active site 383629010757 substrate binding site [chemical binding]; other site 383629010758 ATP binding site [chemical binding]; other site 383629010759 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629010760 Core-2/I-Branching enzyme; Region: Branch; pfam02485 383629010761 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 383629010762 active site 383629010763 phosphorylation site [posttranslational modification] 383629010764 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 383629010765 30S subunit binding site; other site 383629010766 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 383629010767 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 383629010768 Walker A/P-loop; other site 383629010769 ATP binding site [chemical binding]; other site 383629010770 Q-loop/lid; other site 383629010771 ABC transporter signature motif; other site 383629010772 Walker B; other site 383629010773 D-loop; other site 383629010774 H-loop/switch region; other site 383629010775 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 383629010776 OstA-like protein; Region: OstA; pfam03968 383629010777 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 383629010778 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 383629010779 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 383629010780 putative active site [active] 383629010781 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 383629010782 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 383629010783 catalytic site [active] 383629010784 putative active site [active] 383629010785 putative substrate binding site [chemical binding]; other site 383629010786 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 383629010787 heme-binding site [chemical binding]; other site 383629010788 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 383629010789 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 383629010790 putative NAD(P) binding site [chemical binding]; other site 383629010791 active site 383629010792 Bacitracin resistance protein BacA; Region: BacA; pfam02673 383629010793 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 383629010794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629010795 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 383629010796 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 383629010797 active site 383629010798 dimer interface [polypeptide binding]; other site 383629010799 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 383629010800 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 383629010801 active site 383629010802 FMN binding site [chemical binding]; other site 383629010803 substrate binding site [chemical binding]; other site 383629010804 3Fe-4S cluster binding site [ion binding]; other site 383629010805 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 383629010806 domain interface; other site 383629010807 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 383629010808 Transglycosylase; Region: Transgly; cl17702 383629010809 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 383629010810 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629010811 C-terminal domain interface [polypeptide binding]; other site 383629010812 GSH binding site (G-site) [chemical binding]; other site 383629010813 dimer interface [polypeptide binding]; other site 383629010814 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 383629010815 N-terminal domain interface [polypeptide binding]; other site 383629010816 dimer interface [polypeptide binding]; other site 383629010817 substrate binding pocket (H-site) [chemical binding]; other site 383629010818 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 383629010819 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 383629010820 active site 383629010821 metal binding site [ion binding]; metal-binding site 383629010822 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 383629010823 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 383629010824 ligand binding site [chemical binding]; other site 383629010825 NAD binding site [chemical binding]; other site 383629010826 dimerization interface [polypeptide binding]; other site 383629010827 catalytic site [active] 383629010828 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 383629010829 putative L-serine binding site [chemical binding]; other site 383629010830 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 383629010831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629010832 catalytic residue [active] 383629010833 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 383629010834 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 383629010835 motif II; other site 383629010836 hypothetical protein; Provisional; Region: PRK10621 383629010837 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 383629010838 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 383629010839 dimerization interface [polypeptide binding]; other site 383629010840 putative DNA binding site [nucleotide binding]; other site 383629010841 putative Zn2+ binding site [ion binding]; other site 383629010842 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 383629010843 putative hydrophobic ligand binding site [chemical binding]; other site 383629010844 YCII-related domain; Region: YCII; cl00999 383629010845 L-asparaginase II; Region: Asparaginase_II; pfam06089 383629010846 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 383629010847 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 383629010848 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 383629010849 FeS/SAM binding site; other site 383629010850 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 383629010851 active site 383629010852 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 383629010853 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 383629010854 hypothetical protein; Provisional; Region: PRK06815 383629010855 threonine dehydratase; Provisional; Region: PRK08246 383629010856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629010857 catalytic residue [active] 383629010858 Transcriptional regulators [Transcription]; Region: FadR; COG2186 383629010859 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629010860 DNA-binding site [nucleotide binding]; DNA binding site 383629010861 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 383629010862 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 383629010863 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 383629010864 trimer interface [polypeptide binding]; other site 383629010865 active site 383629010866 substrate binding site [chemical binding]; other site 383629010867 CoA binding site [chemical binding]; other site 383629010868 urocanate hydratase; Provisional; Region: PRK05414 383629010869 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 383629010870 N-formylglutamate amidohydrolase; Region: FGase; cl01522 383629010871 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 383629010872 active sites [active] 383629010873 tetramer interface [polypeptide binding]; other site 383629010874 imidazolonepropionase; Validated; Region: PRK09356 383629010875 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 383629010876 active site 383629010877 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 383629010878 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 383629010879 active site 383629010880 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 383629010881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629010882 DNA-binding site [nucleotide binding]; DNA binding site 383629010883 UTRA domain; Region: UTRA; pfam07702 383629010884 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 383629010885 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629010886 substrate binding pocket [chemical binding]; other site 383629010887 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629010888 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 383629010889 membrane-bound complex binding site; other site 383629010890 hinge residues; other site 383629010891 Hint domain; Region: Hint_2; pfam13403 383629010892 Hint domain; Region: Hint_2; pfam13403 383629010893 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 383629010894 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 383629010895 metal binding site [ion binding]; metal-binding site 383629010896 dimer interface [polypeptide binding]; other site 383629010897 ribonuclease R; Region: RNase_R; TIGR02063 383629010898 RNB domain; Region: RNB; pfam00773 383629010899 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 383629010900 RNA binding site [nucleotide binding]; other site 383629010901 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 383629010902 Predicted transcriptional regulator [Transcription]; Region: COG2378 383629010903 HTH domain; Region: HTH_11; pfam08279 383629010904 WYL domain; Region: WYL; pfam13280 383629010905 Transglycosylase SLT domain; Region: SLT_2; pfam13406 383629010906 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 383629010907 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629010908 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629010909 ABC1 family; Region: ABC1; cl17513 383629010910 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 383629010911 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 383629010912 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 383629010913 S-adenosylmethionine binding site [chemical binding]; other site 383629010914 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 383629010915 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 383629010916 DNA binding site [nucleotide binding] 383629010917 catalytic residue [active] 383629010918 H2TH interface [polypeptide binding]; other site 383629010919 putative catalytic residues [active] 383629010920 turnover-facilitating residue; other site 383629010921 intercalation triad [nucleotide binding]; other site 383629010922 8OG recognition residue [nucleotide binding]; other site 383629010923 putative reading head residues; other site 383629010924 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 383629010925 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 383629010926 enoyl-CoA hydratase; Provisional; Region: PRK05862 383629010927 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 383629010928 substrate binding site [chemical binding]; other site 383629010929 oxyanion hole (OAH) forming residues; other site 383629010930 trimer interface [polypeptide binding]; other site 383629010931 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 383629010932 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 383629010933 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 383629010934 P-loop; other site 383629010935 Magnesium ion binding site [ion binding]; other site 383629010936 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 383629010937 Magnesium ion binding site [ion binding]; other site 383629010938 ParB-like nuclease domain; Region: ParB; smart00470 383629010939 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 383629010940 active site 383629010941 catalytic residues [active] 383629010942 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 383629010943 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 383629010944 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 383629010945 active site 383629010946 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 383629010947 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 383629010948 active site 383629010949 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 383629010950 O-Antigen ligase; Region: Wzy_C; pfam04932 383629010951 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 383629010952 Chain length determinant protein; Region: Wzz; pfam02706 383629010953 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 383629010954 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 383629010955 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 383629010956 Ligand binding site; other site 383629010957 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 383629010958 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 383629010959 active site 383629010960 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 383629010961 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 383629010962 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 383629010963 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 383629010964 putative ligand binding site [chemical binding]; other site 383629010965 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 383629010966 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629010967 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629010968 dimer interface [polypeptide binding]; other site 383629010969 putative CheW interface [polypeptide binding]; other site 383629010970 AzlC protein; Region: AzlC; cl00570 383629010971 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629010972 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 383629010973 putative DNA binding site [nucleotide binding]; other site 383629010974 putative Zn2+ binding site [ion binding]; other site 383629010975 AsnC family; Region: AsnC_trans_reg; pfam01037 383629010976 H+ Antiporter protein; Region: 2A0121; TIGR00900 383629010977 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 383629010978 putative substrate translocation pore; other site 383629010979 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 383629010980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629010981 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 383629010982 dimerization interface [polypeptide binding]; other site 383629010983 choline dehydrogenase; Validated; Region: PRK02106 383629010984 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 383629010985 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 383629010986 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 383629010987 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 383629010988 active site pocket [active] 383629010989 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629010990 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 383629010991 NAD(P) binding site [chemical binding]; other site 383629010992 catalytic residues [active] 383629010993 catalytic residues [active] 383629010994 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 383629010995 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 383629010996 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 383629010997 dimerization interface [polypeptide binding]; other site 383629010998 DPS ferroxidase diiron center [ion binding]; other site 383629010999 ion pore; other site 383629011000 Transcriptional regulators [Transcription]; Region: GntR; COG1802 383629011001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629011002 DNA-binding site [nucleotide binding]; DNA binding site 383629011003 FCD domain; Region: FCD; pfam07729 383629011004 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 383629011005 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 383629011006 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629011007 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 383629011008 non-specific DNA binding site [nucleotide binding]; other site 383629011009 salt bridge; other site 383629011010 sequence-specific DNA binding site [nucleotide binding]; other site 383629011011 Cupin domain; Region: Cupin_2; pfam07883 383629011012 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 383629011013 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 383629011014 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629011015 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011016 dimer interface [polypeptide binding]; other site 383629011017 conserved gate region; other site 383629011018 putative PBP binding loops; other site 383629011019 ABC-ATPase subunit interface; other site 383629011020 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 383629011021 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011022 dimer interface [polypeptide binding]; other site 383629011023 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 383629011024 ABC-ATPase subunit interface; other site 383629011025 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 383629011026 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629011027 Walker A/P-loop; other site 383629011028 ATP binding site [chemical binding]; other site 383629011029 Q-loop/lid; other site 383629011030 ABC transporter signature motif; other site 383629011031 Walker B; other site 383629011032 D-loop; other site 383629011033 H-loop/switch region; other site 383629011034 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 383629011035 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 383629011036 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629011037 Walker A/P-loop; other site 383629011038 ATP binding site [chemical binding]; other site 383629011039 Q-loop/lid; other site 383629011040 ABC transporter signature motif; other site 383629011041 Walker B; other site 383629011042 D-loop; other site 383629011043 H-loop/switch region; other site 383629011044 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 383629011045 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 383629011046 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 383629011047 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 383629011048 active site 383629011049 Cache domain; Region: Cache_1; pfam02743 383629011050 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 383629011051 dimerization interface [polypeptide binding]; other site 383629011052 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629011053 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629011054 dimer interface [polypeptide binding]; other site 383629011055 putative CheW interface [polypeptide binding]; other site 383629011056 colanic acid exporter; Provisional; Region: PRK10459 383629011057 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 383629011058 Bacterial sugar transferase; Region: Bac_transf; pfam02397 383629011059 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 383629011060 active site 383629011061 catalytic residues [active] 383629011062 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 383629011063 Family description; Region: VCBS; pfam13517 383629011064 Family description; Region: VCBS; pfam13517 383629011065 Family description; Region: VCBS; pfam13517 383629011066 Family description; Region: VCBS; pfam13517 383629011067 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 383629011068 MarR family; Region: MarR_2; cl17246 383629011069 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 383629011070 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 383629011071 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 383629011072 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 383629011073 putative ligand binding site [chemical binding]; other site 383629011074 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629011075 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 383629011076 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 383629011077 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 383629011078 TM-ABC transporter signature motif; other site 383629011079 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 383629011080 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 383629011081 Walker A/P-loop; other site 383629011082 ATP binding site [chemical binding]; other site 383629011083 Q-loop/lid; other site 383629011084 ABC transporter signature motif; other site 383629011085 Walker B; other site 383629011086 D-loop; other site 383629011087 H-loop/switch region; other site 383629011088 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 383629011089 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 383629011090 DNA binding residues [nucleotide binding] 383629011091 dimer interface [polypeptide binding]; other site 383629011092 putative metal binding site [ion binding]; other site 383629011093 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 383629011094 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 383629011095 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 383629011096 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 383629011097 active site 383629011098 DNA binding site [nucleotide binding] 383629011099 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 383629011100 DNA binding site [nucleotide binding] 383629011101 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 383629011102 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 383629011103 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 383629011104 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 383629011105 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 383629011106 active site 383629011107 DNA binding site [nucleotide binding] 383629011108 Int/Topo IB signature motif; other site 383629011109 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 383629011110 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 383629011111 NAD(P) binding site [chemical binding]; other site 383629011112 catalytic residues [active] 383629011113 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 383629011114 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 383629011115 FeS/SAM binding site; other site 383629011116 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 383629011117 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 383629011118 Fe-S cluster binding site [ion binding]; other site 383629011119 active site 383629011120 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 383629011121 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 383629011122 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 383629011123 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 383629011124 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 383629011125 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 383629011126 active site 383629011127 metal binding site [ion binding]; metal-binding site 383629011128 transcription termination factor Rho; Provisional; Region: rho; PRK09376 383629011129 Predicted membrane protein [Function unknown]; Region: COG2311 383629011130 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 383629011131 Protein of unknown function (DUF418); Region: DUF418; pfam04235 383629011132 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 383629011133 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629011134 Transglycosylase SLT domain; Region: SLT_2; pfam13406 383629011135 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 383629011136 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629011137 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629011138 Predicted periplasmic protein [Function unknown]; Region: COG3904 383629011139 Talin, middle domain; Region: Talin_middle; pfam09141 383629011140 MgtC family; Region: MgtC; pfam02308 383629011141 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 383629011142 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 383629011143 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 383629011144 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 383629011145 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 383629011146 ATP binding site [chemical binding]; other site 383629011147 Mg2+ binding site [ion binding]; other site 383629011148 G-X-G motif; other site 383629011149 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 383629011150 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 383629011151 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 383629011152 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 383629011153 Histidine kinase; Region: HisKA_2; pfam07568 383629011154 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 383629011155 ATP binding site [chemical binding]; other site 383629011156 Mg2+ binding site [ion binding]; other site 383629011157 G-X-G motif; other site 383629011158 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 383629011159 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 383629011160 metal binding site [ion binding]; metal-binding site 383629011161 putative dimer interface [polypeptide binding]; other site 383629011162 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 383629011163 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 383629011164 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 383629011165 catalytic residue [active] 383629011166 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 383629011167 AsnC family; Region: AsnC_trans_reg; pfam01037 383629011168 Transglycosylase SLT domain; Region: SLT_2; pfam13406 383629011169 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 383629011170 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 383629011171 N-acetyl-D-glucosamine binding site [chemical binding]; other site 383629011172 catalytic residue [active] 383629011173 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 383629011174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629011175 NAD(P) binding site [chemical binding]; other site 383629011176 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 383629011177 active site 383629011178 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 383629011179 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 383629011180 NAD(P) binding site [chemical binding]; other site 383629011181 catalytic residues [active] 383629011182 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 383629011183 active site 2 [active] 383629011184 active site 1 [active] 383629011185 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 383629011186 Flavoprotein; Region: Flavoprotein; pfam02441 383629011187 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 383629011188 active site 383629011189 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 383629011190 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 383629011191 transmembrane helices; other site 383629011192 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 383629011193 homodimer interaction site [polypeptide binding]; other site 383629011194 cofactor binding site; other site 383629011195 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_21; cd08520 383629011196 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 383629011197 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629011198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011199 dimer interface [polypeptide binding]; other site 383629011200 conserved gate region; other site 383629011201 putative PBP binding loops; other site 383629011202 ABC-ATPase subunit interface; other site 383629011203 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 383629011204 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 383629011205 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629011206 Walker A/P-loop; other site 383629011207 ATP binding site [chemical binding]; other site 383629011208 Q-loop/lid; other site 383629011209 ABC transporter signature motif; other site 383629011210 Walker B; other site 383629011211 D-loop; other site 383629011212 H-loop/switch region; other site 383629011213 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629011214 Walker A/P-loop; other site 383629011215 ATP binding site [chemical binding]; other site 383629011216 Q-loop/lid; other site 383629011217 ABC transporter signature motif; other site 383629011218 Walker B; other site 383629011219 D-loop; other site 383629011220 H-loop/switch region; other site 383629011221 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 383629011222 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 383629011223 putative active site pocket [active] 383629011224 dimerization interface [polypeptide binding]; other site 383629011225 putative catalytic residue [active] 383629011226 Peptidase family M23; Region: Peptidase_M23; pfam01551 383629011227 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 383629011228 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 383629011229 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 383629011230 active site 383629011231 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 383629011232 active site 383629011233 Prephenate dehydratase; Region: PDT; pfam00800 383629011234 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 383629011235 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 383629011236 putative C-terminal domain interface [polypeptide binding]; other site 383629011237 putative GSH binding site (G-site) [chemical binding]; other site 383629011238 putative dimer interface [polypeptide binding]; other site 383629011239 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 383629011240 putative N-terminal domain interface [polypeptide binding]; other site 383629011241 putative dimer interface [polypeptide binding]; other site 383629011242 putative substrate binding pocket (H-site) [chemical binding]; other site 383629011243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629011244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011245 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 383629011246 dimerization interface [polypeptide binding]; other site 383629011247 cell density-dependent motility repressor; Provisional; Region: PRK10082 383629011248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011249 LysR substrate binding domain; Region: LysR_substrate; pfam03466 383629011250 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 383629011251 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629011252 Walker A/P-loop; other site 383629011253 ATP binding site [chemical binding]; other site 383629011254 Q-loop/lid; other site 383629011255 ABC transporter signature motif; other site 383629011256 Walker B; other site 383629011257 D-loop; other site 383629011258 H-loop/switch region; other site 383629011259 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 383629011260 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 383629011261 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 383629011262 Walker A/P-loop; other site 383629011263 ATP binding site [chemical binding]; other site 383629011264 Q-loop/lid; other site 383629011265 ABC transporter signature motif; other site 383629011266 Walker B; other site 383629011267 D-loop; other site 383629011268 H-loop/switch region; other site 383629011269 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 383629011270 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 383629011271 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 383629011272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011273 dimer interface [polypeptide binding]; other site 383629011274 conserved gate region; other site 383629011275 putative PBP binding loops; other site 383629011276 ABC-ATPase subunit interface; other site 383629011277 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 383629011278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011279 dimer interface [polypeptide binding]; other site 383629011280 conserved gate region; other site 383629011281 putative PBP binding loops; other site 383629011282 ABC-ATPase subunit interface; other site 383629011283 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 383629011284 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 383629011285 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629011286 Protein of unknown function (DUF995); Region: DUF995; pfam06191 383629011287 Winged helix-turn helix; Region: HTH_29; pfam13551 383629011288 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629011289 Integrase core domain; Region: rve; pfam00665 383629011290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629011291 Integrase core domain; Region: rve_3; pfam13683 383629011292 Domain of unknown function DUF87; Region: DUF87; pfam01935 383629011293 SIR2-like domain; Region: SIR2_2; pfam13289 383629011294 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 383629011295 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 383629011296 Winged helix-turn helix; Region: HTH_29; pfam13551 383629011297 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629011298 Integrase core domain; Region: rve; pfam00665 383629011299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629011300 Integrase core domain; Region: rve_3; pfam13683 383629011301 Transposase; Region: HTH_Tnp_1; cl17663 383629011302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 383629011303 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 383629011304 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 383629011305 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 383629011306 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 383629011307 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 383629011308 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 383629011309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011310 dimer interface [polypeptide binding]; other site 383629011311 conserved gate region; other site 383629011312 putative PBP binding loops; other site 383629011313 ABC-ATPase subunit interface; other site 383629011314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011315 dimer interface [polypeptide binding]; other site 383629011316 conserved gate region; other site 383629011317 putative PBP binding loops; other site 383629011318 ABC-ATPase subunit interface; other site 383629011319 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 383629011320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629011321 Walker A/P-loop; other site 383629011322 ATP binding site [chemical binding]; other site 383629011323 Q-loop/lid; other site 383629011324 ABC transporter signature motif; other site 383629011325 Walker B; other site 383629011326 D-loop; other site 383629011327 H-loop/switch region; other site 383629011328 TOBE domain; Region: TOBE_2; pfam08402 383629011329 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 383629011330 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 383629011331 catalytic core [active] 383629011332 This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins; Region: LNS2; smart00775 383629011333 Hint domain; Region: Hint_2; pfam13403 383629011334 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 383629011335 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 383629011336 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 383629011337 putative dimer interface [polypeptide binding]; other site 383629011338 N-terminal domain interface [polypeptide binding]; other site 383629011339 putative substrate binding pocket (H-site) [chemical binding]; other site 383629011340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011341 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629011342 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 383629011343 putative effector binding pocket; other site 383629011344 dimerization interface [polypeptide binding]; other site 383629011345 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 383629011346 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 383629011347 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 383629011348 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 383629011349 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 383629011350 NnrS protein; Region: NnrS; pfam05940 383629011351 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 383629011352 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 383629011353 metal ion-dependent adhesion site (MIDAS); other site 383629011354 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 383629011355 MoxR-like ATPases [General function prediction only]; Region: COG0714 383629011356 Walker A motif; other site 383629011357 ATP binding site [chemical binding]; other site 383629011358 Walker B motif; other site 383629011359 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 383629011360 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 383629011361 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 383629011362 Putative water exit pathway; other site 383629011363 Binuclear center (active site) [active] 383629011364 K-pathway; other site 383629011365 Putative proton exit pathway; other site 383629011366 Cytochrome c; Region: Cytochrom_C; pfam00034 383629011367 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 383629011368 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629011369 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 383629011370 ligand binding site [chemical binding]; other site 383629011371 flexible hinge region; other site 383629011372 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 383629011373 putative switch regulator; other site 383629011374 non-specific DNA interactions [nucleotide binding]; other site 383629011375 DNA binding site [nucleotide binding] 383629011376 sequence specific DNA binding site [nucleotide binding]; other site 383629011377 putative cAMP binding site [chemical binding]; other site 383629011378 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 383629011379 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 383629011380 Multicopper oxidase; Region: Cu-oxidase; pfam00394 383629011381 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 383629011382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 383629011383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629011384 Helix-turn-helix domain; Region: HTH_18; pfam12833 383629011385 Cupin domain; Region: Cupin_2; pfam07883 383629011386 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 383629011387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 383629011388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 383629011389 MOSC domain; Region: MOSC; pfam03473 383629011390 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 383629011391 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 383629011392 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 383629011393 FMN-binding pocket [chemical binding]; other site 383629011394 flavin binding motif; other site 383629011395 phosphate binding motif [ion binding]; other site 383629011396 beta-alpha-beta structure motif; other site 383629011397 NAD binding pocket [chemical binding]; other site 383629011398 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 383629011399 catalytic loop [active] 383629011400 iron binding site [ion binding]; other site 383629011401 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 383629011402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011403 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 383629011404 dimerization interface [polypeptide binding]; other site 383629011405 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 383629011406 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 383629011407 [2Fe-2S] cluster binding site [ion binding]; other site 383629011408 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 383629011409 alpha subunit interface [polypeptide binding]; other site 383629011410 active site 383629011411 substrate binding site [chemical binding]; other site 383629011412 Fe binding site [ion binding]; other site 383629011413 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 383629011414 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 383629011415 NAD(P) binding site [chemical binding]; other site 383629011416 catalytic residues [active] 383629011417 catalytic residues [active] 383629011418 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629011419 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629011420 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 383629011421 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629011422 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629011423 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 383629011424 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 383629011425 BCCT family transporter; Region: BCCT; pfam02028 383629011426 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 383629011427 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 383629011428 active site 383629011429 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 383629011430 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629011431 NAD(P) binding site [chemical binding]; other site 383629011432 catalytic residues [active] 383629011433 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629011434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011435 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 383629011436 putative dimerization interface [polypeptide binding]; other site 383629011437 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629011438 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 383629011439 conserved cys residue [active] 383629011440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629011441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629011442 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 383629011443 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 383629011444 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 383629011445 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629011446 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 383629011447 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 383629011448 hydroxyglutarate oxidase; Provisional; Region: PRK11728 383629011449 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 383629011450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 383629011451 DNA-binding site [nucleotide binding]; DNA binding site 383629011452 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 383629011453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629011454 homodimer interface [polypeptide binding]; other site 383629011455 catalytic residue [active] 383629011456 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 383629011457 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 383629011458 substrate binding site [chemical binding]; other site 383629011459 oxyanion hole (OAH) forming residues; other site 383629011460 trimer interface [polypeptide binding]; other site 383629011461 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 383629011462 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 383629011463 active site 383629011464 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 383629011465 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 383629011466 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 383629011467 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629011468 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 383629011469 Predicted transcriptional regulators [Transcription]; Region: COG1695 383629011470 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 383629011471 metal binding site 2 [ion binding]; metal-binding site 383629011472 putative DNA binding helix; other site 383629011473 dimer interface [polypeptide binding]; other site 383629011474 structural Zn2+ binding site [ion binding]; other site 383629011475 metal binding site 1 [ion binding]; metal-binding site 383629011476 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 383629011477 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 383629011478 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 383629011479 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 383629011480 Walker A/P-loop; other site 383629011481 ATP binding site [chemical binding]; other site 383629011482 Q-loop/lid; other site 383629011483 ABC transporter signature motif; other site 383629011484 Walker B; other site 383629011485 D-loop; other site 383629011486 H-loop/switch region; other site 383629011487 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 383629011488 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 383629011489 FtsX-like permease family; Region: FtsX; pfam02687 383629011490 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 383629011491 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 383629011492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629011493 active site 383629011494 phosphorylation site [posttranslational modification] 383629011495 intermolecular recognition site; other site 383629011496 dimerization interface [polypeptide binding]; other site 383629011497 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 383629011498 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 383629011499 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 383629011500 S-adenosylmethionine binding site [chemical binding]; other site 383629011501 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 383629011502 putative CheA interaction surface; other site 383629011503 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 383629011504 putative binding surface; other site 383629011505 active site 383629011506 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 383629011507 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 383629011508 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 383629011509 ATP binding site [chemical binding]; other site 383629011510 Mg2+ binding site [ion binding]; other site 383629011511 G-X-G motif; other site 383629011512 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 383629011513 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629011514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629011515 active site 383629011516 phosphorylation site [posttranslational modification] 383629011517 intermolecular recognition site; other site 383629011518 dimerization interface [polypeptide binding]; other site 383629011519 STAS domain; Region: STAS_2; pfam13466 383629011520 Cache domain; Region: Cache_1; pfam02743 383629011521 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 383629011522 dimerization interface [polypeptide binding]; other site 383629011523 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 383629011524 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 383629011525 dimer interface [polypeptide binding]; other site 383629011526 putative CheW interface [polypeptide binding]; other site 383629011527 CheB methylesterase; Region: CheB_methylest; pfam01339 383629011528 CheD chemotactic sensory transduction; Region: CheD; cl00810 383629011529 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 383629011530 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 383629011531 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 383629011532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011533 putative PBP binding loops; other site 383629011534 dimer interface [polypeptide binding]; other site 383629011535 ABC-ATPase subunit interface; other site 383629011536 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 383629011537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629011538 Walker A/P-loop; other site 383629011539 ATP binding site [chemical binding]; other site 383629011540 Q-loop/lid; other site 383629011541 ABC transporter signature motif; other site 383629011542 Walker B; other site 383629011543 D-loop; other site 383629011544 H-loop/switch region; other site 383629011545 TOBE domain; Region: TOBE; cl01440 383629011546 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 383629011547 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629011548 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 383629011549 intersubunit interface [polypeptide binding]; other site 383629011550 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 383629011551 metal binding site [ion binding]; metal-binding site 383629011552 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 383629011553 metal binding site 2 [ion binding]; metal-binding site 383629011554 putative DNA binding helix; other site 383629011555 metal binding site 1 [ion binding]; metal-binding site 383629011556 dimer interface [polypeptide binding]; other site 383629011557 structural Zn2+ binding site [ion binding]; other site 383629011558 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 383629011559 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 383629011560 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 383629011561 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 383629011562 ABC-ATPase subunit interface; other site 383629011563 dimer interface [polypeptide binding]; other site 383629011564 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 383629011565 dimer interface [polypeptide binding]; other site 383629011566 phosphorylation site [posttranslational modification] 383629011567 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 383629011568 ATP binding site [chemical binding]; other site 383629011569 Mg2+ binding site [ion binding]; other site 383629011570 G-X-G motif; other site 383629011571 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 383629011572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629011573 active site 383629011574 phosphorylation site [posttranslational modification] 383629011575 intermolecular recognition site; other site 383629011576 dimerization interface [polypeptide binding]; other site 383629011577 Response regulator receiver domain; Region: Response_reg; pfam00072 383629011578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 383629011579 active site 383629011580 phosphorylation site [posttranslational modification] 383629011581 intermolecular recognition site; other site 383629011582 dimerization interface [polypeptide binding]; other site 383629011583 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 383629011584 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 383629011585 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 383629011586 active site residue [active] 383629011587 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 383629011588 active site residue [active] 383629011589 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 383629011590 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 383629011591 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 383629011592 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 383629011593 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 383629011594 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 383629011595 putative active site [active] 383629011596 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 383629011597 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 383629011598 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 383629011599 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 383629011600 Amidinotransferase; Region: Amidinotransf; cl12043 383629011601 hypothetical protein; Provisional; Region: PRK07524 383629011602 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 383629011603 PYR/PP interface [polypeptide binding]; other site 383629011604 dimer interface [polypeptide binding]; other site 383629011605 TPP binding site [chemical binding]; other site 383629011606 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 383629011607 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 383629011608 TPP-binding site [chemical binding]; other site 383629011609 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 383629011610 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 383629011611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629011612 homodimer interface [polypeptide binding]; other site 383629011613 catalytic residue [active] 383629011614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 383629011615 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 383629011616 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 383629011617 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 383629011618 Walker A/P-loop; other site 383629011619 ATP binding site [chemical binding]; other site 383629011620 Q-loop/lid; other site 383629011621 ABC transporter signature motif; other site 383629011622 Walker B; other site 383629011623 D-loop; other site 383629011624 H-loop/switch region; other site 383629011625 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 383629011626 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629011627 substrate binding pocket [chemical binding]; other site 383629011628 membrane-bound complex binding site; other site 383629011629 hinge residues; other site 383629011630 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 383629011631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011632 dimer interface [polypeptide binding]; other site 383629011633 conserved gate region; other site 383629011634 putative PBP binding loops; other site 383629011635 ABC-ATPase subunit interface; other site 383629011636 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 383629011637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011638 dimer interface [polypeptide binding]; other site 383629011639 conserved gate region; other site 383629011640 putative PBP binding loops; other site 383629011641 ABC-ATPase subunit interface; other site 383629011642 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 383629011643 DnaA N-terminal domain; Region: DnaA_N; pfam11638 383629011644 Replication initiator protein A; Region: RPA; pfam10134 383629011645 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 383629011646 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 383629011647 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629011648 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 383629011649 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 383629011650 Walker A/P-loop; other site 383629011651 ATP binding site [chemical binding]; other site 383629011652 Q-loop/lid; other site 383629011653 ABC transporter signature motif; other site 383629011654 Walker B; other site 383629011655 D-loop; other site 383629011656 H-loop/switch region; other site 383629011657 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629011658 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629011659 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 383629011660 DNA binding residues [nucleotide binding] 383629011661 dimerization interface [polypeptide binding]; other site 383629011662 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629011663 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629011664 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 383629011665 DNA binding residues [nucleotide binding] 383629011666 dimerization interface [polypeptide binding]; other site 383629011667 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 383629011668 putative ADP-binding pocket [chemical binding]; other site 383629011669 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 383629011670 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 383629011671 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 383629011672 Condensation domain; Region: Condensation; pfam00668 383629011673 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 383629011674 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 383629011675 acyl-activating enzyme (AAE) consensus motif; other site 383629011676 AMP binding site [chemical binding]; other site 383629011677 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 383629011678 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 383629011679 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629011680 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 383629011681 substrate binding pocket [chemical binding]; other site 383629011682 membrane-bound complex binding site; other site 383629011683 hinge residues; other site 383629011684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011685 dimer interface [polypeptide binding]; other site 383629011686 conserved gate region; other site 383629011687 putative PBP binding loops; other site 383629011688 ABC-ATPase subunit interface; other site 383629011689 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 383629011690 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 383629011691 Walker A/P-loop; other site 383629011692 ATP binding site [chemical binding]; other site 383629011693 Q-loop/lid; other site 383629011694 ABC transporter signature motif; other site 383629011695 Walker B; other site 383629011696 D-loop; other site 383629011697 H-loop/switch region; other site 383629011698 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 383629011699 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 383629011700 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 383629011701 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 383629011702 NAD(P) binding site [chemical binding]; other site 383629011703 homodimer interface [polypeptide binding]; other site 383629011704 substrate binding site [chemical binding]; other site 383629011705 active site 383629011706 Bacterial sugar transferase; Region: Bac_transf; pfam02397 383629011707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 383629011708 active site 383629011709 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 383629011710 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 383629011711 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 383629011712 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 383629011713 substrate binding site; other site 383629011714 tetramer interface; other site 383629011715 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 383629011716 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 383629011717 NADP binding site [chemical binding]; other site 383629011718 active site 383629011719 putative substrate binding site [chemical binding]; other site 383629011720 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 383629011721 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 383629011722 NAD binding site [chemical binding]; other site 383629011723 substrate binding site [chemical binding]; other site 383629011724 homodimer interface [polypeptide binding]; other site 383629011725 active site 383629011726 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 383629011727 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 383629011728 active site 383629011729 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 383629011730 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 383629011731 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 383629011732 Peptidase_G2, IMC autoproteolytic cleavage domain; Region: Peptidase_G2; pfam11962 383629011733 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 383629011734 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 383629011735 Substrate binding site; other site 383629011736 Cupin domain; Region: Cupin_2; cl17218 383629011737 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 383629011738 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 383629011739 NADP binding site [chemical binding]; other site 383629011740 active site 383629011741 putative substrate binding site [chemical binding]; other site 383629011742 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 383629011743 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 383629011744 NADP-binding site; other site 383629011745 homotetramer interface [polypeptide binding]; other site 383629011746 substrate binding site [chemical binding]; other site 383629011747 homodimer interface [polypeptide binding]; other site 383629011748 active site 383629011749 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 383629011750 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629011751 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 383629011752 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 383629011753 Walker A/P-loop; other site 383629011754 ATP binding site [chemical binding]; other site 383629011755 Q-loop/lid; other site 383629011756 ABC transporter signature motif; other site 383629011757 Walker B; other site 383629011758 D-loop; other site 383629011759 H-loop/switch region; other site 383629011760 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 383629011761 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 383629011762 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 383629011763 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 383629011764 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 383629011765 Probable Catalytic site; other site 383629011766 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 383629011767 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629011768 UDP-galactopyranose mutase; Region: GLF; pfam03275 383629011769 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 383629011770 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 383629011771 Walker A/P-loop; other site 383629011772 ATP binding site [chemical binding]; other site 383629011773 Q-loop/lid; other site 383629011774 ABC transporter signature motif; other site 383629011775 Walker B; other site 383629011776 D-loop; other site 383629011777 H-loop/switch region; other site 383629011778 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 383629011779 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 383629011780 ABC-2 type transporter; Region: ABC2_membrane; cl17235 383629011781 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 383629011782 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 383629011783 active site 383629011784 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 383629011785 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 383629011786 putative NAD(P) binding site [chemical binding]; other site 383629011787 active site 383629011788 putative substrate binding site [chemical binding]; other site 383629011789 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 383629011790 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 383629011791 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 383629011792 ParB-like nuclease domain; Region: ParBc; cl02129 383629011793 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 383629011794 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 383629011795 P-loop; other site 383629011796 Magnesium ion binding site [ion binding]; other site 383629011797 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 383629011798 Magnesium ion binding site [ion binding]; other site 383629011799 Initiator Replication protein; Region: Rep_3; pfam01051 383629011800 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 383629011801 ABC1 family; Region: ABC1; pfam03109 383629011802 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 383629011803 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 383629011804 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 383629011805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629011806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011807 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 383629011808 dimerization interface [polypeptide binding]; other site 383629011809 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 383629011810 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 383629011811 heme binding site [chemical binding]; other site 383629011812 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 383629011813 heme binding site [chemical binding]; other site 383629011814 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 383629011815 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 383629011816 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 383629011817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 383629011818 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 383629011819 DNA binding residues [nucleotide binding] 383629011820 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 383629011821 Transcriptional regulator; Region: Rrf2; cl17282 383629011822 Rrf2 family protein; Region: rrf2_super; TIGR00738 383629011823 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 383629011824 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 383629011825 heme-binding site [chemical binding]; other site 383629011826 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 383629011827 FAD binding pocket [chemical binding]; other site 383629011828 FAD binding motif [chemical binding]; other site 383629011829 phosphate binding motif [ion binding]; other site 383629011830 beta-alpha-beta structure motif; other site 383629011831 NAD binding pocket [chemical binding]; other site 383629011832 Heme binding pocket [chemical binding]; other site 383629011833 H+ Antiporter protein; Region: 2A0121; TIGR00900 383629011834 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 383629011835 Winged helix-turn helix; Region: HTH_29; pfam13551 383629011836 Helix-turn-helix domain; Region: HTH_28; pfam13518 383629011837 Integrase core domain; Region: rve; pfam00665 383629011838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 383629011839 Integrase core domain; Region: rve_3; pfam13683 383629011840 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 383629011841 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 383629011842 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 383629011843 NAD binding site [chemical binding]; other site 383629011844 catalytic residues [active] 383629011845 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629011846 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629011847 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 383629011848 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 383629011849 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 383629011850 Transcriptional regulators [Transcription]; Region: PurR; COG1609 383629011851 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 383629011852 DNA binding site [nucleotide binding] 383629011853 domain linker motif; other site 383629011854 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 383629011855 ligand binding site [chemical binding]; other site 383629011856 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 383629011857 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 383629011858 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 383629011859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011860 dimer interface [polypeptide binding]; other site 383629011861 conserved gate region; other site 383629011862 putative PBP binding loops; other site 383629011863 ABC-ATPase subunit interface; other site 383629011864 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 383629011865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 383629011866 dimer interface [polypeptide binding]; other site 383629011867 conserved gate region; other site 383629011868 putative PBP binding loops; other site 383629011869 ABC-ATPase subunit interface; other site 383629011870 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 383629011871 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 383629011872 Walker A/P-loop; other site 383629011873 ATP binding site [chemical binding]; other site 383629011874 Q-loop/lid; other site 383629011875 ABC transporter signature motif; other site 383629011876 Walker B; other site 383629011877 D-loop; other site 383629011878 H-loop/switch region; other site 383629011879 TOBE domain; Region: TOBE_2; pfam08402 383629011880 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 383629011881 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 383629011882 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 383629011883 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 383629011884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 383629011885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 383629011886 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 383629011887 dimerization interface [polypeptide binding]; other site 383629011888 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 383629011889 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 383629011890 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 383629011891 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 383629011892 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 383629011893 non-specific DNA binding site [nucleotide binding]; other site 383629011894 salt bridge; other site 383629011895 sequence-specific DNA binding site [nucleotide binding]; other site 383629011896 Cupin domain; Region: Cupin_2; pfam07883 383629011897 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 383629011898 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 383629011899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 383629011900 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 383629011901 lipoyl synthase; Provisional; Region: PRK05481 383629011902 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 383629011903 FeS/SAM binding site; other site 383629011904 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 383629011905 amino acid carrier protein; Region: agcS; TIGR00835 383629011906 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 383629011907 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 383629011908 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 383629011909 lipoyl attachment site [posttranslational modification]; other site 383629011910 glycine dehydrogenase; Provisional; Region: PRK05367 383629011911 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 383629011912 tetramer interface [polypeptide binding]; other site 383629011913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629011914 catalytic residue [active] 383629011915 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 383629011916 tetramer interface [polypeptide binding]; other site 383629011917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 383629011918 catalytic residue [active] 383629011919 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 383629011920 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 383629011921 conserved cys residue [active] 383629011922 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 383629011923 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 383629011924 ligand binding site [chemical binding]; other site 383629011925 flexible hinge region; other site 383629011926 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; cl17320 383629011927 Domain of unknown function (DUF336); Region: DUF336; cl01249 383629011928 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 383629011929 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 383629011930 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 383629011931 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 383629011932 Walker A/P-loop; other site 383629011933 ATP binding site [chemical binding]; other site 383629011934 Q-loop/lid; other site 383629011935 ABC transporter signature motif; other site 383629011936 Walker B; other site 383629011937 D-loop; other site 383629011938 H-loop/switch region; other site 383629011939 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 383629011940 ABC-ATPase subunit interface; other site 383629011941 dimer interface [polypeptide binding]; other site 383629011942 putative PBP binding regions; other site 383629011943 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 383629011944 ABC-ATPase subunit interface; other site 383629011945 dimer interface [polypeptide binding]; other site 383629011946 putative PBP binding regions; other site 383629011947 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 383629011948 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 383629011949 intersubunit interface [polypeptide binding]; other site 383629011950 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 383629011951 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 383629011952 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 383629011953 IucA / IucC family; Region: IucA_IucC; pfam04183 383629011954 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 383629011955 IucA / IucC family; Region: IucA_IucC; pfam04183 383629011956 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 383629011957 acyl-CoA synthetase; Validated; Region: PRK08308 383629011958 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 383629011959 acyl-activating enzyme (AAE) consensus motif; other site 383629011960 AMP binding site [chemical binding]; other site 383629011961 active site 383629011962 CoA binding site [chemical binding]; other site 383629011963 acyl carrier protein; Provisional; Region: PRK07639 383629011964 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 383629011965 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 383629011966 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 383629011967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 383629011968 Walker A/P-loop; other site 383629011969 ATP binding site [chemical binding]; other site 383629011970 Q-loop/lid; other site 383629011971 ABC transporter signature motif; other site 383629011972 Walker B; other site 383629011973 D-loop; other site 383629011974 H-loop/switch region; other site 383629011975 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 383629011976 Fic family protein [Function unknown]; Region: COG3177 383629011977 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 383629011978 Fic/DOC family; Region: Fic; pfam02661 383629011979 MarR family; Region: MarR_2; cl17246 383629011980 Autoinducer binding domain; Region: Autoind_bind; pfam03472 383629011981 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 383629011982 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 383629011983 DNA binding residues [nucleotide binding] 383629011984 dimerization interface [polypeptide binding]; other site 383629011985 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 383629011986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 383629011987 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 383629011988 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 383629011989 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 383629011990 HlyD family secretion protein; Region: HlyD_3; pfam13437 383629011991 MltA-interacting protein MipA; Region: MipA; cl01504 383629011992 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 383629011993 dimerization interface [polypeptide binding]; other site 383629011994 putative DNA binding site [nucleotide binding]; other site 383629011995 putative Zn2+ binding site [ion binding]; other site 383629011996 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 383629011997 putative hydrophobic ligand binding site [chemical binding]; other site 383629011998 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 383629011999 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 383629012000 substrate binding pocket [chemical binding]; other site 383629012001 membrane-bound complex binding site; other site 383629012002 hinge residues; other site 383629012003 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 383629012004 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 383629012005 dimer interface [polypeptide binding]; other site 383629012006 phosphorylation site [posttranslational modification] 383629012007 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 383629012008 ATP binding site [chemical binding]; other site 383629012009 Mg2+ binding site [ion binding]; other site 383629012010 G-X-G motif; other site 383629012011 PRC-barrel domain; Region: PRC; pfam05239 383629012012 ParB-like nuclease domain; Region: ParB; smart00470 383629012013 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 383629012014 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 383629012015 P-loop; other site 383629012016 Magnesium ion binding site [ion binding]; other site 383629012017 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 383629012018 Magnesium ion binding site [ion binding]; other site