-- dump date 20120504_140858 -- class Genbank::misc_feature -- table misc_feature_note -- id note 488538000001 EamA-like transporter family; Region: EamA; cl01037 488538000002 Predicted helicase [General function prediction only]; Region: COG4889 488538000003 Restriction endonuclease; Region: Mrr_cat; cl00516 488538000004 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 488538000005 ATP binding site [chemical binding]; other site 488538000006 putative Mg++ binding site [ion binding]; other site 488538000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538000008 Restriction endonuclease; Region: Mrr_cat; cl00516 488538000009 DNA topoisomerase I; Validated; Region: PRK07220 488538000010 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 488538000011 YcfA-like protein; Region: YcfA; cl00752 488538000012 Sel1 repeat; Region: Sel1; cl02723 488538000013 Sel1 repeat; Region: Sel1; cl02723 488538000014 Sel1 repeat; Region: Sel1; cl02723 488538000015 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 488538000016 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 488538000017 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 488538000018 Helix-turn-helix domains; Region: HTH; cl00088 488538000019 Helix-turn-helix domains; Region: HTH; cl00088 488538000020 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 488538000021 putative ABC transporter; Region: ycf24; CHL00085 488538000022 FeS assembly ATPase SufC; Region: sufC; TIGR01978 488538000023 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 488538000024 Walker A/P-loop; other site 488538000025 ATP binding site [chemical binding]; other site 488538000026 Q-loop/lid; other site 488538000027 ABC transporter signature motif; other site 488538000028 Walker B; other site 488538000029 D-loop; other site 488538000030 H-loop/switch region; other site 488538000031 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 488538000032 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 488538000033 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 488538000034 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 488538000035 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538000036 catalytic residue [active] 488538000037 Domain of unknown function DUF59; Region: DUF59; cl00941 488538000038 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 488538000039 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 488538000040 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 488538000041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538000042 Walker A/P-loop; other site 488538000043 ATP binding site [chemical binding]; other site 488538000044 Q-loop/lid; other site 488538000045 ABC transporter signature motif; other site 488538000046 Walker B; other site 488538000047 D-loop; other site 488538000048 H-loop/switch region; other site 488538000049 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 488538000050 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538000051 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 488538000052 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538000053 putative substrate translocation pore; other site 488538000054 Cupin domain; Region: Cupin_2; cl09118 488538000055 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 488538000056 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 488538000057 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 488538000058 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 488538000059 GTP binding site; other site 488538000060 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 488538000061 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 488538000062 putative active site [active] 488538000063 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 488538000064 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 488538000065 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 488538000066 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 488538000067 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 488538000068 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 488538000069 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 488538000070 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538000071 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538000072 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 488538000073 putative C-terminal domain interface [polypeptide binding]; other site 488538000074 putative GSH binding site (G-site) [chemical binding]; other site 488538000075 putative dimer interface [polypeptide binding]; other site 488538000076 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 488538000077 putative N-terminal domain interface [polypeptide binding]; other site 488538000078 putative dimer interface [polypeptide binding]; other site 488538000079 putative substrate binding pocket (H-site) [chemical binding]; other site 488538000080 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 488538000081 homotrimer interaction site [polypeptide binding]; other site 488538000082 putative active site [active] 488538000083 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538000084 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538000085 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 488538000086 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488538000087 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 488538000088 substrate binding site [chemical binding]; other site 488538000089 ATP binding site [chemical binding]; other site 488538000090 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 488538000091 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 488538000092 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 488538000093 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 488538000094 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 488538000095 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 488538000096 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 488538000097 dimer interface [polypeptide binding]; other site 488538000098 conserved gate region; other site 488538000099 putative PBP binding loops; other site 488538000100 ABC-ATPase subunit interface; other site 488538000101 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488538000102 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 488538000103 dimer interface [polypeptide binding]; other site 488538000104 conserved gate region; other site 488538000105 putative PBP binding loops; other site 488538000106 ABC-ATPase subunit interface; other site 488538000107 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 488538000108 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 488538000109 Walker A/P-loop; other site 488538000110 ATP binding site [chemical binding]; other site 488538000111 Q-loop/lid; other site 488538000112 ABC transporter signature motif; other site 488538000113 Walker B; other site 488538000114 D-loop; other site 488538000115 H-loop/switch region; other site 488538000116 TOBE domain; Region: TOBE_2; cl01440 488538000117 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 488538000118 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 488538000119 histidinol dehydrogenase; Region: hisD; TIGR00069 488538000120 NAD binding site [chemical binding]; other site 488538000121 dimerization interface [polypeptide binding]; other site 488538000122 product binding site; other site 488538000123 substrate binding site [chemical binding]; other site 488538000124 zinc binding site [ion binding]; other site 488538000125 catalytic residues [active] 488538000126 short chain dehydrogenase; Provisional; Region: PRK07060 488538000127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000128 NAD(P) binding site [chemical binding]; other site 488538000129 active site 488538000130 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488538000131 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488538000132 DNA binding site [nucleotide binding] 488538000133 domain linker motif; other site 488538000134 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 488538000135 putative dimerization interface [polypeptide binding]; other site 488538000136 putative ligand binding site [chemical binding]; other site 488538000137 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 488538000138 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 488538000139 Cupin domain; Region: Cupin_2; cl09118 488538000140 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 488538000141 substrate binding site [chemical binding]; other site 488538000142 THF binding site; other site 488538000143 zinc-binding site [ion binding]; other site 488538000144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538000145 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 488538000146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488538000147 DNA-binding site [nucleotide binding]; DNA binding site 488538000148 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 488538000149 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 488538000150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538000151 homodimer interface [polypeptide binding]; other site 488538000152 catalytic residue [active] 488538000153 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538000154 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 488538000155 NAD(P) binding site [chemical binding]; other site 488538000156 catalytic residues [active] 488538000157 Epoxide hydrolase N terminus; Region: EHN; pfam06441 488538000158 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 488538000159 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 488538000160 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538000161 DctM-like transporters; Region: DctM; pfam06808 488538000162 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538000163 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538000164 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 488538000165 hypothetical protein; Provisional; Region: PRK07538 488538000166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000167 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 488538000168 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 488538000169 substrate binding pocket [chemical binding]; other site 488538000170 membrane-bound complex binding site; other site 488538000171 hinge residues; other site 488538000172 beta-ketothiolase; Provisional; Region: PRK09051 488538000173 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 488538000174 dimer interface [polypeptide binding]; other site 488538000175 active site 488538000176 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 488538000177 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538000178 Walker A/P-loop; other site 488538000179 ATP binding site [chemical binding]; other site 488538000180 Q-loop/lid; other site 488538000181 ABC transporter signature motif; other site 488538000182 Walker B; other site 488538000183 D-loop; other site 488538000184 H-loop/switch region; other site 488538000185 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538000186 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538000187 Walker A/P-loop; other site 488538000188 ATP binding site [chemical binding]; other site 488538000189 Q-loop/lid; other site 488538000190 ABC transporter signature motif; other site 488538000191 Walker B; other site 488538000192 D-loop; other site 488538000193 H-loop/switch region; other site 488538000194 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538000195 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 488538000196 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 488538000197 dimer interface [polypeptide binding]; other site 488538000198 conserved gate region; other site 488538000199 putative PBP binding loops; other site 488538000200 ABC-ATPase subunit interface; other site 488538000201 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 488538000202 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 488538000203 dimer interface [polypeptide binding]; other site 488538000204 conserved gate region; other site 488538000205 putative PBP binding loops; other site 488538000206 ABC-ATPase subunit interface; other site 488538000207 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 488538000208 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 488538000209 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 488538000210 active site pocket [active] 488538000211 oxyanion hole [active] 488538000212 catalytic triad [active] 488538000213 active site nucleophile [active] 488538000214 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538000215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538000216 Helix-turn-helix domains; Region: HTH; cl00088 488538000217 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 488538000218 dimerization interface [polypeptide binding]; other site 488538000219 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538000220 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 488538000221 phosphate binding site [ion binding]; other site 488538000222 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 488538000223 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538000224 PYR/PP interface [polypeptide binding]; other site 488538000225 dimer interface [polypeptide binding]; other site 488538000226 TPP binding site [chemical binding]; other site 488538000227 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538000228 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 488538000229 TPP-binding site; other site 488538000230 dimer interface [polypeptide binding]; other site 488538000231 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl01000 488538000232 active site 488538000233 homotetramer interface [polypeptide binding]; other site 488538000234 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 488538000235 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538000236 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 488538000237 Esterase/lipase [General function prediction only]; Region: COG1647 488538000238 ferrochelatase; Reviewed; Region: hemH; PRK00035 488538000239 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 488538000240 C-terminal domain interface [polypeptide binding]; other site 488538000241 active site 488538000242 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 488538000243 active site 488538000244 N-terminal domain interface [polypeptide binding]; other site 488538000245 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 488538000246 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 488538000247 dimer interface [polypeptide binding]; other site 488538000248 decamer (pentamer of dimers) interface [polypeptide binding]; other site 488538000249 catalytic triad [active] 488538000250 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 488538000251 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 488538000252 substrate-cofactor binding pocket; other site 488538000253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538000254 catalytic residue [active] 488538000255 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 488538000256 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 488538000257 catalytic loop [active] 488538000258 iron binding site [ion binding]; other site 488538000259 4Fe-4S binding domain; Region: Fer4; cl02805 488538000260 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 488538000261 [4Fe-4S] binding site [ion binding]; other site 488538000262 molybdopterin cofactor binding site; other site 488538000263 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 488538000264 molybdopterin cofactor binding site; other site 488538000265 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 488538000266 putative dimer interface [polypeptide binding]; other site 488538000267 [2Fe-2S] cluster binding site [ion binding]; other site 488538000268 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 488538000269 SLBB domain; Region: SLBB; pfam10531 488538000270 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 488538000271 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 488538000272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488538000273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538000274 active site 488538000275 phosphorylation site [posttranslational modification] 488538000276 intermolecular recognition site; other site 488538000277 dimerization interface [polypeptide binding]; other site 488538000278 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 488538000279 DNA binding site [nucleotide binding] 488538000280 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 488538000281 recombinase A; Provisional; Region: recA; PRK09354 488538000282 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 488538000283 hexamer interface [polypeptide binding]; other site 488538000284 Walker A motif; other site 488538000285 ATP binding site [chemical binding]; other site 488538000286 Walker B motif; other site 488538000287 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 488538000288 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 488538000289 motif 1; other site 488538000290 active site 488538000291 motif 2; other site 488538000292 motif 3; other site 488538000293 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 488538000294 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 488538000295 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 488538000296 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 488538000297 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 488538000298 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 488538000299 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 488538000300 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 488538000301 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 488538000302 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 488538000303 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 488538000304 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 488538000305 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 488538000306 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 488538000307 shikimate binding site; other site 488538000308 NAD(P) binding site [chemical binding]; other site 488538000309 GcrA cell cycle regulator; Region: GcrA; cl11564 488538000310 aminopeptidase N; Provisional; Region: pepN; PRK14015 488538000311 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 488538000312 Zn binding site [ion binding]; other site 488538000313 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 488538000314 DEAD-like helicases superfamily; Region: DEXDc; smart00487 488538000315 ATP binding site [chemical binding]; other site 488538000316 Mg++ binding site [ion binding]; other site 488538000317 motif III; other site 488538000318 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 488538000319 nucleotide binding region [chemical binding]; other site 488538000320 ATP-binding site [chemical binding]; other site 488538000321 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538000322 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538000323 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 488538000324 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 488538000325 ATP binding site [chemical binding]; other site 488538000326 Mg2+ binding site [ion binding]; other site 488538000327 G-X-G motif; other site 488538000328 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 488538000329 anchoring element; other site 488538000330 dimer interface [polypeptide binding]; other site 488538000331 ATP binding site [chemical binding]; other site 488538000332 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 488538000333 active site 488538000334 metal binding site [ion binding]; metal-binding site 488538000335 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 488538000336 glutamine synthetase; Provisional; Region: glnA; PRK09469 488538000337 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 488538000338 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 488538000339 Nitrogen regulatory protein P-II; Region: P-II; cl00412 488538000340 Nitrogen regulatory protein P-II; Region: P-II; smart00938 488538000341 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 488538000342 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 488538000343 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 488538000344 putative active site [active] 488538000345 N-formylglutamate amidohydrolase; Region: FGase; cl01522 488538000346 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 488538000347 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 488538000348 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538000349 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538000350 DctM-like transporters; Region: DctM; pfam06808 488538000351 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538000352 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 488538000353 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 488538000354 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538000355 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 488538000356 NAD(P) binding site [chemical binding]; other site 488538000357 catalytic residues [active] 488538000358 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 488538000359 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 488538000360 putative active site [active] 488538000361 metal binding site [ion binding]; metal-binding site 488538000362 EamA-like transporter family; Region: EamA; cl01037 488538000363 EamA-like transporter family; Region: EamA; cl01037 488538000364 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 488538000365 active site 488538000366 catalytic site [active] 488538000367 substrate binding site [chemical binding]; other site 488538000368 FOG: CBS domain [General function prediction only]; Region: COG0517 488538000369 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 488538000370 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 488538000371 metal binding triad; other site 488538000372 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 488538000373 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 488538000374 Ligand Binding Site [chemical binding]; other site 488538000375 trigger factor; Provisional; Region: tig; PRK01490 488538000376 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 488538000377 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 488538000378 Clp protease; Region: CLP_protease; pfam00574 488538000379 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 488538000380 oligomer interface [polypeptide binding]; other site 488538000381 active site residues [active] 488538000382 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 488538000383 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 488538000384 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 488538000385 Walker A motif; other site 488538000386 ATP binding site [chemical binding]; other site 488538000387 Walker B motif; other site 488538000388 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 488538000389 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 488538000390 Found in ATP-dependent protease La (LON); Region: LON; smart00464 488538000391 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 488538000392 Walker A motif; other site 488538000393 ATP binding site [chemical binding]; other site 488538000394 Walker B motif; other site 488538000395 arginine finger; other site 488538000396 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 488538000397 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 488538000398 IHF dimer interface [polypeptide binding]; other site 488538000399 IHF - DNA interface [nucleotide binding]; other site 488538000400 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 488538000401 putative dimer interface [polypeptide binding]; other site 488538000402 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 488538000403 putative substrate binding site [chemical binding]; other site 488538000404 putative ATP binding site [chemical binding]; other site 488538000405 EamA-like transporter family; Region: EamA; cl01037 488538000406 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538000407 Predicted membrane protein [Function unknown]; Region: COG2364 488538000408 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 488538000409 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 488538000410 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488538000411 ArsC family; Region: ArsC; pfam03960 488538000412 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 488538000413 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 488538000414 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538000415 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 488538000416 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538000417 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 488538000418 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 488538000419 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 488538000420 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 488538000421 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 488538000422 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 488538000423 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 488538000424 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 488538000425 putative dimer interface [polypeptide binding]; other site 488538000426 [2Fe-2S] cluster binding site [ion binding]; other site 488538000427 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 488538000428 SLBB domain; Region: SLBB; pfam10531 488538000429 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 488538000430 NADH dehydrogenase subunit G; Validated; Region: PRK09130 488538000431 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 488538000432 catalytic loop [active] 488538000433 iron binding site [ion binding]; other site 488538000434 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 488538000435 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 488538000436 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 488538000437 NADH dehydrogenase; Region: NADHdh; cl00469 488538000438 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 488538000439 4Fe-4S binding domain; Region: Fer4; cl02805 488538000440 4Fe-4S binding domain; Region: Fer4; cl02805 488538000441 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 488538000442 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 488538000443 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 488538000444 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 488538000445 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 488538000446 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 488538000447 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 488538000448 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 488538000449 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 488538000450 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 488538000451 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 488538000452 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 488538000453 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 488538000454 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 488538000455 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 488538000456 Type III pantothenate kinase; Region: Pan_kinase; cl09130 488538000457 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 488538000458 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538000459 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 488538000460 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488538000461 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 488538000462 dimer interface [polypeptide binding]; other site 488538000463 substrate binding site [chemical binding]; other site 488538000464 metal binding site [ion binding]; metal-binding site 488538000465 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 488538000466 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 488538000467 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 488538000468 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 488538000469 dimer interface [polypeptide binding]; other site 488538000470 active site 488538000471 glycine-pyridoxal phosphate binding site [chemical binding]; other site 488538000472 folate binding site [chemical binding]; other site 488538000473 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 488538000474 ATP cone domain; Region: ATP-cone; pfam03477 488538000475 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 488538000476 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 488538000477 catalytic motif [active] 488538000478 Zn binding site [ion binding]; other site 488538000479 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 488538000480 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 488538000481 Lumazine binding domain; Region: Lum_binding; pfam00677 488538000482 Lumazine binding domain; Region: Lum_binding; pfam00677 488538000483 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 488538000484 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 488538000485 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; cl00522 488538000486 dimerization interface [polypeptide binding]; other site 488538000487 active site 488538000488 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 488538000489 homopentamer interface [polypeptide binding]; other site 488538000490 active site 488538000491 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 488538000492 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 488538000493 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 488538000494 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 488538000495 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 488538000496 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 488538000497 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 488538000498 dimer interface [polypeptide binding]; other site 488538000499 active site 488538000500 CoA binding pocket [chemical binding]; other site 488538000501 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 488538000502 IHF dimer interface [polypeptide binding]; other site 488538000503 IHF - DNA interface [nucleotide binding]; other site 488538000504 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 488538000505 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 488538000506 DNA binding residues [nucleotide binding] 488538000507 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 488538000508 active site 488538000509 DNA binding site [nucleotide binding] 488538000510 Int/Topo IB signature motif; other site 488538000511 hypothetical protein; Validated; Region: PRK07078 488538000512 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 488538000513 active site 488538000514 metal binding site [ion binding]; metal-binding site 488538000515 interdomain interaction site; other site 488538000516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538000517 Walker A motif; other site 488538000518 ATP binding site [chemical binding]; other site 488538000519 Walker B motif; other site 488538000520 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 488538000521 diiron binding motif [ion binding]; other site 488538000522 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 488538000523 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 488538000524 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 488538000525 ligand binding site [chemical binding]; other site 488538000526 DEAD-like helicases superfamily; Region: DEXDc; smart00487 488538000527 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 488538000528 ATP binding site [chemical binding]; other site 488538000529 putative Mg++ binding site [ion binding]; other site 488538000530 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 488538000531 nucleotide binding region [chemical binding]; other site 488538000532 ATP-binding site [chemical binding]; other site 488538000533 Restriction endonuclease; Region: Mrr_cat; cl00516 488538000534 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 488538000535 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 488538000536 HEAT repeats; Region: HEAT_2; pfam13646 488538000537 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488538000538 EamA-like transporter family; Region: EamA; cl01037 488538000539 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538000540 EamA-like transporter family; Region: EamA; cl01037 488538000541 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 488538000542 AMP-binding enzyme; Region: AMP-binding; cl15778 488538000543 AMP-binding enzyme; Region: AMP-binding; cl15778 488538000544 anthranilate synthase component I; Provisional; Region: PRK13573 488538000545 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 488538000546 chorismate binding enzyme; Region: Chorismate_bind; cl10555 488538000547 periplasmic folding chaperone; Provisional; Region: PRK10788 488538000548 PPIC-type PPIASE domain; Region: Rotamase; cl08278 488538000549 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 488538000550 substrate binding site [chemical binding]; other site 488538000551 dimer interface [polypeptide binding]; other site 488538000552 catalytic triad [active] 488538000553 Preprotein translocase SecG subunit; Region: SecG; cl09123 488538000554 CTP synthetase; Validated; Region: pyrG; PRK05380 488538000555 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 488538000556 Catalytic site [active] 488538000557 active site 488538000558 UTP binding site [chemical binding]; other site 488538000559 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 488538000560 active site 488538000561 putative oxyanion hole; other site 488538000562 catalytic triad [active] 488538000563 NeuB family; Region: NeuB; cl00496 488538000564 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 488538000565 enolase; Provisional; Region: eno; PRK00077 488538000566 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 488538000567 dimer interface [polypeptide binding]; other site 488538000568 metal binding site [ion binding]; metal-binding site 488538000569 substrate binding pocket [chemical binding]; other site 488538000570 Septum formation initiator; Region: DivIC; cl11433 488538000571 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 488538000572 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 488538000573 tetramer interface [polypeptide binding]; other site 488538000574 TPP-binding site [chemical binding]; other site 488538000575 heterodimer interface [polypeptide binding]; other site 488538000576 phosphorylation loop region [posttranslational modification] 488538000577 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 488538000578 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 488538000579 E3 interaction surface; other site 488538000580 lipoyl attachment site [posttranslational modification]; other site 488538000581 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 488538000582 alpha subunit interface [polypeptide binding]; other site 488538000583 TPP binding site [chemical binding]; other site 488538000584 heterodimer interface [polypeptide binding]; other site 488538000585 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 488538000586 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 488538000587 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 488538000588 E3 interaction surface; other site 488538000589 lipoyl attachment site [posttranslational modification]; other site 488538000590 e3 binding domain; Region: E3_binding; pfam02817 488538000591 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 488538000592 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 488538000593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538000595 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488538000596 lipoyl synthase; Provisional; Region: PRK05481 488538000597 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 488538000598 FeS/SAM binding site; other site 488538000599 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 488538000600 putative coenzyme Q binding site [chemical binding]; other site 488538000601 Competence-damaged protein; Region: CinA; cl00666 488538000602 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 488538000603 tetramer interfaces [polypeptide binding]; other site 488538000604 binuclear metal-binding site [ion binding]; other site 488538000605 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 488538000606 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 488538000607 substrate binding site; other site 488538000608 dimer interface; other site 488538000609 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 488538000610 homotrimer interaction site [polypeptide binding]; other site 488538000611 zinc binding site [ion binding]; other site 488538000612 CDP-binding sites; other site 488538000613 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 488538000614 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 488538000615 FMN binding site [chemical binding]; other site 488538000616 active site 488538000617 catalytic residues [active] 488538000618 substrate binding site [chemical binding]; other site 488538000619 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 488538000620 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 488538000621 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 488538000622 dimer interface [polypeptide binding]; other site 488538000623 phosphorylation site [posttranslational modification] 488538000624 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 488538000625 ATP binding site [chemical binding]; other site 488538000626 Mg2+ binding site [ion binding]; other site 488538000627 G-X-G motif; other site 488538000628 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 488538000629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538000630 active site 488538000631 phosphorylation site [posttranslational modification] 488538000632 intermolecular recognition site; other site 488538000633 dimerization interface [polypeptide binding]; other site 488538000634 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 488538000635 Walker A motif; other site 488538000636 ATP binding site [chemical binding]; other site 488538000637 Walker B motif; other site 488538000638 Helix-turn-helix domains; Region: HTH; cl00088 488538000639 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 488538000640 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 488538000641 dimerization interface [polypeptide binding]; other site 488538000642 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 488538000643 dimer interface [polypeptide binding]; other site 488538000644 phosphorylation site [posttranslational modification] 488538000645 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 488538000646 ATP binding site [chemical binding]; other site 488538000647 Mg2+ binding site [ion binding]; other site 488538000648 G-X-G motif; other site 488538000649 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 488538000650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538000651 active site 488538000652 phosphorylation site [posttranslational modification] 488538000653 intermolecular recognition site; other site 488538000654 dimerization interface [polypeptide binding]; other site 488538000655 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 488538000656 Walker A motif; other site 488538000657 ATP binding site [chemical binding]; other site 488538000658 Walker B motif; other site 488538000659 arginine finger; other site 488538000660 Helix-turn-helix domains; Region: HTH; cl00088 488538000661 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 488538000662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000663 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 488538000664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000665 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 488538000666 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 488538000667 Sm1 motif; other site 488538000668 D1 - D2 interaction site; other site 488538000669 D3 - B interaction site; other site 488538000670 Hfq - Hfq interaction site; other site 488538000671 RNA binding pocket [nucleotide binding]; other site 488538000672 Sm2 motif; other site 488538000673 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 488538000674 active site 488538000675 LysE type translocator; Region: LysE; cl00565 488538000676 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 488538000677 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 488538000678 homodimer interface [polypeptide binding]; other site 488538000679 metal binding site [ion binding]; metal-binding site 488538000680 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 488538000681 homodimer interface [polypeptide binding]; other site 488538000682 active site 488538000683 putative chemical substrate binding site [chemical binding]; other site 488538000684 metal binding site [ion binding]; metal-binding site 488538000685 Protein of unknown function (DUF502); Region: DUF502; cl01107 488538000686 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 488538000687 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 488538000688 generic binding surface II; other site 488538000689 ssDNA binding site; other site 488538000690 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 488538000691 ATP binding site [chemical binding]; other site 488538000692 putative Mg++ binding site [ion binding]; other site 488538000693 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 488538000694 nucleotide binding region [chemical binding]; other site 488538000695 ATP-binding site [chemical binding]; other site 488538000696 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 488538000697 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 488538000698 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 488538000699 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 488538000700 ATP binding site [chemical binding]; other site 488538000701 putative Mg++ binding site [ion binding]; other site 488538000702 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 488538000703 nucleotide binding region [chemical binding]; other site 488538000704 TRCF domain; Region: TRCF; cl04088 488538000705 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 488538000706 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 488538000707 catalytic residues [active] 488538000708 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 488538000709 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538000710 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488538000711 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 488538000712 dimer interface [polypeptide binding]; other site 488538000713 N-terminal domain interface [polypeptide binding]; other site 488538000714 substrate binding pocket (H-site) [chemical binding]; other site 488538000715 aminodeoxychorismate synthase; Provisional; Region: PRK07508 488538000716 chorismate binding enzyme; Region: Chorismate_bind; cl10555 488538000717 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 488538000718 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 488538000719 glutamine binding [chemical binding]; other site 488538000720 catalytic triad [active] 488538000721 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 488538000722 substrate-cofactor binding pocket; other site 488538000723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538000724 catalytic residue [active] 488538000725 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 488538000726 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538000727 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538000728 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 488538000729 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 488538000730 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 488538000731 FMN-binding pocket [chemical binding]; other site 488538000732 flavin binding motif; other site 488538000733 phosphate binding motif [ion binding]; other site 488538000734 beta-alpha-beta structure motif; other site 488538000735 NAD binding pocket [chemical binding]; other site 488538000736 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 488538000737 catalytic loop [active] 488538000738 iron binding site [ion binding]; other site 488538000739 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 488538000740 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 488538000741 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 488538000742 conserved cys residue [active] 488538000743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488538000744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488538000745 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 488538000746 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 488538000747 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 488538000748 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538000749 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 488538000750 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 488538000751 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538000752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000753 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 488538000754 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 488538000755 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488538000756 DNA-binding site [nucleotide binding]; DNA binding site 488538000757 UTRA domain; Region: UTRA; cl01230 488538000758 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 488538000759 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 488538000760 active site 488538000761 dimer interface [polypeptide binding]; other site 488538000762 non-prolyl cis peptide bond; other site 488538000763 insertion regions; other site 488538000764 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 488538000765 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 488538000766 active site 488538000767 catalytic tetrad [active] 488538000768 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538000769 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538000770 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538000771 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 488538000772 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538000773 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 488538000774 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 488538000775 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 488538000776 metal binding site [ion binding]; metal-binding site 488538000777 putative dimer interface [polypeptide binding]; other site 488538000778 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 488538000779 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 488538000780 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 488538000781 [2Fe-2S] cluster binding site [ion binding]; other site 488538000782 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 488538000783 putative alpha subunit interface [polypeptide binding]; other site 488538000784 putative active site [active] 488538000785 putative substrate binding site [chemical binding]; other site 488538000786 Fe binding site [ion binding]; other site 488538000787 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 488538000788 homotrimer interaction site [polypeptide binding]; other site 488538000789 putative active site [active] 488538000790 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 488538000791 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 488538000792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538000793 Helix-turn-helix domains; Region: HTH; cl00088 488538000794 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 488538000795 putative substrate binding pocket [chemical binding]; other site 488538000796 dimerization interface [polypeptide binding]; other site 488538000797 Cupin domain; Region: Cupin_2; cl09118 488538000798 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 488538000799 EamA-like transporter family; Region: EamA; cl01037 488538000800 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538000801 EamA-like transporter family; Region: EamA; cl01037 488538000802 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 488538000803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000804 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 488538000805 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 488538000806 intersubunit interface [polypeptide binding]; other site 488538000807 active site 488538000808 Zn2+ binding site [ion binding]; other site 488538000809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000810 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538000811 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538000812 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538000813 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 488538000814 xylulokinase; Provisional; Region: PRK15027 488538000815 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 488538000816 N- and C-terminal domain interface [polypeptide binding]; other site 488538000817 active site 488538000818 catalytic site [active] 488538000819 metal binding site [ion binding]; metal-binding site 488538000820 xylulose binding site [chemical binding]; other site 488538000821 putative ATP binding site [chemical binding]; other site 488538000822 homodimer interface [polypeptide binding]; other site 488538000823 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538000824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000825 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 488538000826 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538000827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000828 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 488538000829 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 488538000830 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 488538000831 putative ligand binding site [chemical binding]; other site 488538000832 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 488538000833 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 488538000834 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 488538000835 TM-ABC transporter signature motif; other site 488538000836 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538000837 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 488538000838 Walker A/P-loop; other site 488538000839 ATP binding site [chemical binding]; other site 488538000840 Q-loop/lid; other site 488538000841 ABC transporter signature motif; other site 488538000842 Walker B; other site 488538000843 D-loop; other site 488538000844 H-loop/switch region; other site 488538000845 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 488538000846 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 488538000847 putative active site [active] 488538000848 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488538000849 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 488538000850 substrate binding site [chemical binding]; other site 488538000851 ATP binding site [chemical binding]; other site 488538000852 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538000853 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 488538000854 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538000855 PYR/PP interface [polypeptide binding]; other site 488538000856 dimer interface [polypeptide binding]; other site 488538000857 TPP binding site [chemical binding]; other site 488538000858 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538000859 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 488538000860 TPP-binding site [chemical binding]; other site 488538000861 KduI/IolB family; Region: KduI; cl01508 488538000862 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538000863 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 488538000864 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 488538000865 Metal-binding active site; metal-binding site 488538000866 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538000867 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488538000868 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 488538000869 substrate binding site [chemical binding]; other site 488538000870 ATP binding site [chemical binding]; other site 488538000871 KduI/IolB family; Region: KduI; cl01508 488538000872 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538000873 active site 488538000874 intersubunit interface [polypeptide binding]; other site 488538000875 zinc binding site [ion binding]; other site 488538000876 Na+ binding site [ion binding]; other site 488538000877 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 488538000878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000879 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 488538000880 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 488538000881 acyl-CoA synthetase; Validated; Region: PRK06839 488538000882 AMP-binding enzyme; Region: AMP-binding; cl15778 488538000883 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538000884 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 488538000885 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 488538000886 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 488538000887 active site 488538000888 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538000889 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538000890 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 488538000891 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 488538000892 N-acetyl-D-glucosamine binding site [chemical binding]; other site 488538000893 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 488538000894 AzlC protein; Region: AzlC; cl00570 488538000895 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 488538000896 Helix-turn-helix domains; Region: HTH; cl00088 488538000897 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 488538000898 Protein export membrane protein; Region: SecD_SecF; cl14618 488538000899 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 488538000900 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538000901 Transcriptional regulator [Transcription]; Region: IclR; COG1414 488538000902 Helix-turn-helix domains; Region: HTH; cl00088 488538000903 Bacterial transcriptional regulator; Region: IclR; pfam01614 488538000904 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 488538000905 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 488538000906 catalytic loop [active] 488538000907 iron binding site [ion binding]; other site 488538000908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000909 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 488538000910 active site 488538000911 catalytic residue [active] 488538000912 acyl-CoA synthetase; Validated; Region: PRK08162 488538000913 AMP-binding enzyme; Region: AMP-binding; cl15778 488538000914 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538000915 short chain dehydrogenase; Provisional; Region: PRK06138 488538000916 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 488538000917 NAD binding site [chemical binding]; other site 488538000918 homotetramer interface [polypeptide binding]; other site 488538000919 homodimer interface [polypeptide binding]; other site 488538000920 active site 488538000921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538000922 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 488538000923 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 488538000924 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 488538000925 active site pocket [active] 488538000926 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488538000927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538000928 Walker A/P-loop; other site 488538000929 ATP binding site [chemical binding]; other site 488538000930 Q-loop/lid; other site 488538000931 ABC transporter signature motif; other site 488538000932 Walker B; other site 488538000933 D-loop; other site 488538000934 H-loop/switch region; other site 488538000935 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488538000936 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 488538000937 dimer interface [polypeptide binding]; other site 488538000938 conserved gate region; other site 488538000939 putative PBP binding loops; other site 488538000940 ABC-ATPase subunit interface; other site 488538000941 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 488538000942 dimer interface [polypeptide binding]; other site 488538000943 conserved gate region; other site 488538000944 putative PBP binding loops; other site 488538000945 ABC-ATPase subunit interface; other site 488538000946 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488538000947 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 488538000948 substrate binding pocket [chemical binding]; other site 488538000949 membrane-bound complex binding site; other site 488538000950 hinge residues; other site 488538000951 Transcriptional regulators [Transcription]; Region: GntR; COG1802 488538000952 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488538000953 DNA-binding site [nucleotide binding]; DNA binding site 488538000954 FCD domain; Region: FCD; cl11656 488538000955 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 488538000956 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 488538000957 inhibitor site; inhibition site 488538000958 active site 488538000959 dimer interface [polypeptide binding]; other site 488538000960 catalytic residue [active] 488538000961 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538000962 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 488538000963 NAD(P) binding site [chemical binding]; other site 488538000964 catalytic residues [active] 488538000965 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 488538000966 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 488538000967 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 488538000968 Proline racemase; Region: Pro_racemase; pfam05544 488538000969 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 488538000970 Moco binding site; other site 488538000971 metal coordination site [ion binding]; other site 488538000972 dimerization interface [polypeptide binding]; other site 488538000973 tartrate dehydrogenase; Provisional; Region: PRK08194 488538000974 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 488538000975 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538000976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538000977 tricarballylate utilization protein B; Provisional; Region: PRK15033 488538000978 tricarballylate utilization protein B; Provisional; Region: PRK15033 488538000979 tricarballylate utilization protein B; Provisional; Region: PRK15033 488538000980 Flavin Reductases; Region: FlaRed; cl00801 488538000981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488538000982 DNA-binding site [nucleotide binding]; DNA binding site 488538000983 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 488538000984 UTRA domain; Region: UTRA; cl01230 488538000985 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 488538000986 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 488538000987 active site 488538000988 imidazolonepropionase; Validated; Region: PRK09356 488538000989 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 488538000990 active site 488538000991 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 488538000992 active sites [active] 488538000993 tetramer interface [polypeptide binding]; other site 488538000994 urocanate hydratase; Provisional; Region: PRK05414 488538000995 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 488538000996 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 488538000997 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 488538000998 N-terminal domain interface [polypeptide binding]; other site 488538000999 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488538001000 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 488538001001 Walker A/P-loop; other site 488538001002 ATP binding site [chemical binding]; other site 488538001003 Q-loop/lid; other site 488538001004 ABC transporter signature motif; other site 488538001005 Walker B; other site 488538001006 D-loop; other site 488538001007 H-loop/switch region; other site 488538001008 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488538001009 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 488538001010 dimer interface [polypeptide binding]; other site 488538001011 conserved gate region; other site 488538001012 putative PBP binding loops; other site 488538001013 ABC-ATPase subunit interface; other site 488538001014 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488538001015 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 488538001016 substrate binding pocket [chemical binding]; other site 488538001017 membrane-bound complex binding site; other site 488538001018 hinge residues; other site 488538001019 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488538001020 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 488538001021 dimer interface [polypeptide binding]; other site 488538001022 conserved gate region; other site 488538001023 putative PBP binding loops; other site 488538001024 ABC-ATPase subunit interface; other site 488538001025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538001026 Helix-turn-helix domains; Region: HTH; cl00088 488538001027 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 488538001028 dimerization interface [polypeptide binding]; other site 488538001029 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 488538001030 TPP-binding site [chemical binding]; other site 488538001031 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 488538001032 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 488538001033 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 488538001034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001035 homodimer interface [polypeptide binding]; other site 488538001036 catalytic residue [active] 488538001037 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 488538001038 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 488538001039 active site 488538001040 Zn binding site [ion binding]; other site 488538001041 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 488538001042 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 488538001043 iron-sulfur cluster [ion binding]; other site 488538001044 [2Fe-2S] cluster binding site [ion binding]; other site 488538001045 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 488538001046 alpha subunit interface [polypeptide binding]; other site 488538001047 active site 488538001048 substrate binding site [chemical binding]; other site 488538001049 Fe binding site [ion binding]; other site 488538001050 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 488538001051 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 488538001052 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 488538001053 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 488538001054 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538001055 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 488538001056 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 488538001057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001058 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 488538001059 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 488538001060 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 488538001061 TM-ABC transporter signature motif; other site 488538001062 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 488538001063 TM-ABC transporter signature motif; other site 488538001064 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538001065 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 488538001066 Walker A/P-loop; other site 488538001067 ATP binding site [chemical binding]; other site 488538001068 Q-loop/lid; other site 488538001069 ABC transporter signature motif; other site 488538001070 Walker B; other site 488538001071 D-loop; other site 488538001072 H-loop/switch region; other site 488538001073 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488538001074 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 488538001075 Walker A/P-loop; other site 488538001076 ATP binding site [chemical binding]; other site 488538001077 Q-loop/lid; other site 488538001078 ABC transporter signature motif; other site 488538001079 Walker B; other site 488538001080 D-loop; other site 488538001081 H-loop/switch region; other site 488538001082 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 488538001083 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 488538001084 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 488538001085 Transglycosylase SLT domain; Region: SLT_2; pfam13406 488538001086 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 488538001087 N-acetyl-D-glucosamine binding site [chemical binding]; other site 488538001088 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 488538001089 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 488538001090 Sporulation related domain; Region: SPOR; cl10051 488538001091 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 488538001092 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 488538001093 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 488538001094 thymidylate kinase; Validated; Region: tmk; PRK00698 488538001095 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 488538001096 TMP-binding site; other site 488538001097 ATP-binding site [chemical binding]; other site 488538001098 DNA polymerase III subunit delta'; Validated; Region: PRK07471 488538001099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001100 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 488538001101 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 488538001102 active site 488538001103 HIGH motif; other site 488538001104 KMSKS motif; other site 488538001105 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 488538001106 tRNA binding surface [nucleotide binding]; other site 488538001107 anticodon binding site; other site 488538001108 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 488538001109 active site 488538001110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538001111 Peptidase family M48; Region: Peptidase_M48; cl12018 488538001112 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 488538001113 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 488538001114 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 488538001115 large terminase protein; Provisional; Region: 17; PHA02533 488538001116 Terminase-like family; Region: Terminase_6; pfam03237 488538001117 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 488538001118 Phage Tail Collar Domain; Region: Collar; pfam07484 488538001119 Thymidylate synthase complementing protein; Region: Thy1; cl03630 488538001120 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 488538001121 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 488538001122 active site 488538001123 dimer interface [polypeptide binding]; other site 488538001124 effector binding site; other site 488538001125 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; cl16911 488538001126 cofactor binding site; other site 488538001127 DNA binding site [nucleotide binding] 488538001128 substrate interaction site [chemical binding]; other site 488538001129 exonuclease; Region: PHA00439 488538001130 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 488538001131 putative active site [active] 488538001132 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 488538001133 putative DNA binding site [nucleotide binding]; other site 488538001134 putative metal binding site [ion binding]; other site 488538001135 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 488538001136 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_B; cd08643 488538001137 active site 488538001138 DNA binding site [nucleotide binding] 488538001139 catalytic site [active] 488538001140 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 488538001141 putative metal binding site [ion binding]; other site 488538001142 CHC2 zinc finger; Region: zf-CHC2; cl15369 488538001143 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 488538001144 active site 488538001145 metal binding site [ion binding]; metal-binding site 488538001146 interdomain interaction site; other site 488538001147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001148 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 488538001149 Walker A motif; other site 488538001150 ATP binding site [chemical binding]; other site 488538001151 Walker B motif; other site 488538001152 single-stranded DNA-binding protein; Region: PHA00458 488538001153 T3/T7-like RNA polymerase; Region: PHA00452 488538001154 DNA-dependent RNA polymerase; Region: RNA_pol; pfam00940 488538001155 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 488538001156 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 488538001157 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; cd00397 488538001158 active site 488538001159 DNA binding site [nucleotide binding] 488538001160 Int/Topo IB signature motif; other site 488538001161 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 488538001162 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 488538001163 active site 488538001164 (T/H)XGH motif; other site 488538001165 DNA gyrase subunit A; Validated; Region: PRK05560 488538001166 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 488538001167 CAP-like domain; other site 488538001168 active site 488538001169 primary dimer interface [polypeptide binding]; other site 488538001170 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488538001171 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488538001172 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488538001173 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488538001174 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488538001175 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 488538001176 dimer interface [polypeptide binding]; other site 488538001177 ssDNA binding site [nucleotide binding]; other site 488538001178 tetramer (dimer of dimers) interface [polypeptide binding]; other site 488538001179 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 488538001180 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 488538001181 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 488538001182 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 488538001183 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 488538001184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001185 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 488538001186 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 488538001187 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 488538001188 Protein export membrane protein; Region: SecD_SecF; cl14618 488538001189 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 488538001190 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 488538001191 Protein export membrane protein; Region: SecD_SecF; cl14618 488538001192 Preprotein translocase subunit; Region: YajC; cl00806 488538001193 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 488538001194 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 488538001195 Walker A motif; other site 488538001196 ATP binding site [chemical binding]; other site 488538001197 Walker B motif; other site 488538001198 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 488538001199 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 488538001200 Peptidase family M23; Region: Peptidase_M23; pfam01551 488538001201 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 488538001202 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 488538001203 S-adenosylmethionine binding site [chemical binding]; other site 488538001204 Survival protein SurE; Region: SurE; cl00448 488538001205 seryl-tRNA synthetase; Provisional; Region: PRK05431 488538001206 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 488538001207 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 488538001208 dimer interface [polypeptide binding]; other site 488538001209 active site 488538001210 motif 1; other site 488538001211 motif 2; other site 488538001212 motif 3; other site 488538001213 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 488538001214 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 488538001215 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 488538001216 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 488538001217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001218 Walker A/P-loop; other site 488538001219 ATP binding site [chemical binding]; other site 488538001220 Q-loop/lid; other site 488538001221 ABC transporter signature motif; other site 488538001222 Walker B; other site 488538001223 D-loop; other site 488538001224 H-loop/switch region; other site 488538001225 TOBE domain; Region: TOBE_2; cl01440 488538001226 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 488538001227 ScpA/B protein; Region: ScpA_ScpB; cl00598 488538001228 Sporulation related domain; Region: SPOR; cl10051 488538001229 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 488538001230 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 488538001231 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 488538001232 active site 488538001233 HIGH motif; other site 488538001234 KMSK motif region; other site 488538001235 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 488538001236 tRNA binding surface [nucleotide binding]; other site 488538001237 anticodon binding site; other site 488538001238 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 488538001239 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 488538001240 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 488538001241 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 488538001242 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 488538001243 putative catalytic site [active] 488538001244 putative phosphate binding site [ion binding]; other site 488538001245 active site 488538001246 metal binding site A [ion binding]; metal-binding site 488538001247 DNA binding site [nucleotide binding] 488538001248 putative AP binding site [nucleotide binding]; other site 488538001249 putative metal binding site B [ion binding]; other site 488538001250 putative acetyltransferase; Provisional; Region: PRK03624 488538001251 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538001252 Coenzyme A binding pocket [chemical binding]; other site 488538001253 Dehydratase family; Region: ILVD_EDD; cl00340 488538001254 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 488538001255 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 488538001256 HIGH motif; other site 488538001257 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 488538001258 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 488538001259 active site 488538001260 KMSKS motif; other site 488538001261 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 488538001262 tRNA binding surface [nucleotide binding]; other site 488538001263 anticodon binding site; other site 488538001264 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 488538001265 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 488538001266 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 488538001267 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 488538001268 NAD(P) binding site [chemical binding]; other site 488538001269 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 488538001270 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 488538001271 Flavin Reductases; Region: FlaRed; cl00801 488538001272 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 488538001273 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 488538001274 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 488538001275 dimerization interface [polypeptide binding]; other site 488538001276 ATP binding site [chemical binding]; other site 488538001277 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 488538001278 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 488538001279 active site residue [active] 488538001280 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 488538001281 Cupin domain; Region: Cupin_2; cl09118 488538001282 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 488538001283 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 488538001284 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 488538001285 metal binding site [ion binding]; metal-binding site 488538001286 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 488538001287 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 488538001288 substrate binding site [chemical binding]; other site 488538001289 glutamase interaction surface [polypeptide binding]; other site 488538001290 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 488538001291 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 488538001292 catalytic residues [active] 488538001293 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 488538001294 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 488538001295 putative active site [active] 488538001296 oxyanion strand; other site 488538001297 catalytic triad [active] 488538001298 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 488538001299 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 488538001300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001301 homodimer interface [polypeptide binding]; other site 488538001302 catalytic residue [active] 488538001303 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 488538001304 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 488538001305 putative active site pocket [active] 488538001306 4-fold oligomerization interface [polypeptide binding]; other site 488538001307 metal binding residues [ion binding]; metal-binding site 488538001308 3-fold/trimer interface [polypeptide binding]; other site 488538001309 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 488538001310 ATP phosphoribosyltransferase; Region: HisG; cl15266 488538001311 HisG, C-terminal domain; Region: HisG_C; cl06867 488538001312 Helix-turn-helix domains; Region: HTH; cl00088 488538001313 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 488538001314 catalytic core [active] 488538001315 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 488538001316 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 488538001317 dimer interface [polypeptide binding]; other site 488538001318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001319 catalytic residue [active] 488538001320 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 488538001321 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 488538001322 active site residue [active] 488538001323 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 488538001324 active site residue [active] 488538001325 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488538001326 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 488538001327 Walker A/P-loop; other site 488538001328 ATP binding site [chemical binding]; other site 488538001329 Q-loop/lid; other site 488538001330 ABC transporter signature motif; other site 488538001331 Walker B; other site 488538001332 D-loop; other site 488538001333 H-loop/switch region; other site 488538001334 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 488538001335 dimer interface [polypeptide binding]; other site 488538001336 conserved gate region; other site 488538001337 putative PBP binding loops; other site 488538001338 ABC-ATPase subunit interface; other site 488538001339 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 488538001340 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 488538001341 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 488538001342 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 488538001343 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 488538001344 substrate binding pocket [chemical binding]; other site 488538001345 membrane-bound complex binding site; other site 488538001346 hinge residues; other site 488538001347 BCCT family transporter; Region: BCCT; cl00569 488538001348 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 488538001349 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 488538001350 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 488538001351 NAD(P) binding site [chemical binding]; other site 488538001352 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 488538001353 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 488538001354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538001355 Coenzyme A binding pocket [chemical binding]; other site 488538001356 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 488538001357 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 488538001358 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 488538001359 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 488538001360 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 488538001361 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 488538001362 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 488538001363 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 488538001364 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 488538001365 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 488538001366 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 488538001367 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 488538001368 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 488538001369 potential protein location (hypothetical protein) that overlaps protein (multiple resistance and pH regulation protein F) 488538001370 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 488538001371 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 488538001372 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 488538001373 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 488538001374 trimerization site [polypeptide binding]; other site 488538001375 active site 488538001376 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 488538001377 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 488538001378 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538001379 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 488538001380 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 488538001381 cyclase homology domain; Region: CHD; cd07302 488538001382 nucleotidyl binding site; other site 488538001383 metal binding site [ion binding]; metal-binding site 488538001384 dimer interface [polypeptide binding]; other site 488538001385 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 488538001386 nudix motif; other site 488538001387 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; cl16911 488538001388 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 488538001389 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 488538001390 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538001391 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538001392 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538001393 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 488538001394 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 488538001395 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 488538001396 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538001397 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 488538001398 DHH family; Region: DHH; pfam01368 488538001399 DHHA1 domain; Region: DHHA1; pfam02272 488538001400 homoserine dehydrogenase; Provisional; Region: PRK06349 488538001401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001402 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 488538001403 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 488538001404 5-oxoprolinase; Region: PLN02666 488538001405 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 488538001406 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 488538001407 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 488538001408 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 488538001409 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538001410 Coenzyme A binding pocket [chemical binding]; other site 488538001411 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 488538001412 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488538001413 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 488538001414 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 488538001415 23S rRNA interface [nucleotide binding]; other site 488538001416 L3 interface [polypeptide binding]; other site 488538001417 Glutamine amidotransferase class-I; Region: GATase; pfam00117 488538001418 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 488538001419 glutamine binding [chemical binding]; other site 488538001420 catalytic triad [active] 488538001421 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 488538001422 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 488538001423 homodimer interface [polypeptide binding]; other site 488538001424 substrate-cofactor binding pocket; other site 488538001425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001426 catalytic residue [active] 488538001427 Sel1 repeat; Region: Sel1; cl02723 488538001428 Sel1 repeat; Region: Sel1; cl02723 488538001429 Sel1 repeat; Region: Sel1; cl02723 488538001430 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 488538001431 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 488538001432 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 488538001433 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 488538001434 active site 488538001435 ribulose/triose binding site [chemical binding]; other site 488538001436 phosphate binding site [ion binding]; other site 488538001437 substrate (anthranilate) binding pocket [chemical binding]; other site 488538001438 product (indole) binding pocket [chemical binding]; other site 488538001439 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 488538001440 trimer interface [polypeptide binding]; other site 488538001441 dimer interface [polypeptide binding]; other site 488538001442 putative active site [active] 488538001443 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 488538001444 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 488538001445 dimer interface [polypeptide binding]; other site 488538001446 putative functional site; other site 488538001447 putative MPT binding site; other site 488538001448 LexA repressor; Validated; Region: PRK00215 488538001449 Helix-turn-helix domains; Region: HTH; cl00088 488538001450 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 488538001451 Catalytic site [active] 488538001452 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 488538001453 Competence protein; Region: Competence; cl00471 488538001454 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 488538001455 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538001456 active site 488538001457 HIGH motif; other site 488538001458 nucleotide binding site [chemical binding]; other site 488538001459 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 488538001460 active site 488538001461 KMSKS motif; other site 488538001462 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 488538001463 dimer interface [polypeptide binding]; other site 488538001464 Citrate synthase; Region: Citrate_synt; pfam00285 488538001465 active site 488538001466 citrylCoA binding site [chemical binding]; other site 488538001467 NADH binding [chemical binding]; other site 488538001468 cationic pore residues; other site 488538001469 oxalacetate/citrate binding site [chemical binding]; other site 488538001470 coenzyme A binding site [chemical binding]; other site 488538001471 catalytic triad [active] 488538001472 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 488538001473 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 488538001474 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 488538001475 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 488538001476 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 488538001477 active site 488538001478 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 488538001479 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 488538001480 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 488538001481 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 488538001482 trimer interface [polypeptide binding]; other site 488538001483 active site 488538001484 UDP-GlcNAc binding site [chemical binding]; other site 488538001485 lipid binding site [chemical binding]; lipid-binding site 488538001486 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 488538001487 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 488538001488 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 488538001489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 488538001490 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 488538001491 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 488538001492 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 488538001493 Surface antigen; Region: Bac_surface_Ag; cl03097 488538001494 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 488538001495 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 488538001496 active site 488538001497 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 488538001498 protein binding site [polypeptide binding]; other site 488538001499 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 488538001500 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 488538001501 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 488538001502 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 488538001503 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 488538001504 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 488538001505 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 488538001506 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 488538001507 catalytic residue [active] 488538001508 putative FPP diphosphate binding site; other site 488538001509 putative FPP binding hydrophobic cleft; other site 488538001510 dimer interface [polypeptide binding]; other site 488538001511 putative IPP diphosphate binding site; other site 488538001512 ribosome recycling factor; Reviewed; Region: frr; PRK00083 488538001513 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 488538001514 hinge region; other site 488538001515 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 488538001516 putative nucleotide binding site [chemical binding]; other site 488538001517 uridine monophosphate binding site [chemical binding]; other site 488538001518 homohexameric interface [polypeptide binding]; other site 488538001519 elongation factor Ts; Provisional; Region: tsf; PRK09377 488538001520 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 488538001521 Elongation factor TS; Region: EF_TS; pfam00889 488538001522 Elongation factor TS; Region: EF_TS; pfam00889 488538001523 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 488538001524 rRNA interaction site [nucleotide binding]; other site 488538001525 S8 interaction site; other site 488538001526 putative laminin-1 binding site; other site 488538001527 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 488538001528 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 488538001529 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 488538001530 generic binding surface I; other site 488538001531 generic binding surface II; other site 488538001532 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488538001533 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 488538001534 Walker A/P-loop; other site 488538001535 ATP binding site [chemical binding]; other site 488538001536 Q-loop/lid; other site 488538001537 ABC transporter signature motif; other site 488538001538 Walker B; other site 488538001539 D-loop; other site 488538001540 H-loop/switch region; other site 488538001541 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 488538001542 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 488538001543 FtsX-like permease family; Region: FtsX; cl15850 488538001544 prolyl-tRNA synthetase; Provisional; Region: PRK12325 488538001545 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 488538001546 dimer interface [polypeptide binding]; other site 488538001547 motif 1; other site 488538001548 active site 488538001549 motif 2; other site 488538001550 motif 3; other site 488538001551 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 488538001552 anticodon binding site; other site 488538001553 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 488538001554 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 488538001555 substrate binding site [chemical binding]; other site 488538001556 oxyanion hole (OAH) forming residues; other site 488538001557 trimer interface [polypeptide binding]; other site 488538001558 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 488538001559 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 488538001560 dimer interface [polypeptide binding]; other site 488538001561 allosteric magnesium binding site [ion binding]; other site 488538001562 active site 488538001563 aspartate-rich active site metal binding site; other site 488538001564 Schiff base residues; other site 488538001565 threonine dehydratase; Provisional; Region: PRK07334 488538001566 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 488538001567 tetramer interface [polypeptide binding]; other site 488538001568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001569 catalytic residue [active] 488538001570 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 488538001571 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 488538001572 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 488538001573 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538001574 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 488538001575 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 488538001576 CAP-like domain; other site 488538001577 active site 488538001578 primary dimer interface [polypeptide binding]; other site 488538001579 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 488538001580 Recombination protein O N terminal; Region: RecO_N; cl15812 488538001581 Recombination protein O C terminal; Region: RecO_C; pfam02565 488538001582 GTPase Era; Reviewed; Region: era; PRK00089 488538001583 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 488538001584 G1 box; other site 488538001585 GTP/Mg2+ binding site [chemical binding]; other site 488538001586 Switch I region; other site 488538001587 G2 box; other site 488538001588 Switch II region; other site 488538001589 G3 box; other site 488538001590 G4 box; other site 488538001591 G5 box; other site 488538001592 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 488538001593 ribonuclease III; Reviewed; Region: rnc; PRK00102 488538001594 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 488538001595 dimerization interface [polypeptide binding]; other site 488538001596 active site 488538001597 metal binding site [ion binding]; metal-binding site 488538001598 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 488538001599 dsRNA binding site [nucleotide binding]; other site 488538001600 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 488538001601 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 488538001602 Catalytic site [active] 488538001603 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 488538001604 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 488538001605 active site 488538001606 hydrophilic channel; other site 488538001607 dimerization interface [polypeptide binding]; other site 488538001608 catalytic residues [active] 488538001609 active site lid [active] 488538001610 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 488538001611 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 488538001612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 488538001613 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 488538001614 synthetase active site [active] 488538001615 NTP binding site [chemical binding]; other site 488538001616 metal binding site [ion binding]; metal-binding site 488538001617 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 488538001618 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 488538001619 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 488538001620 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 488538001621 catalytic center binding site [active] 488538001622 ATP binding site [chemical binding]; other site 488538001623 LabA_like proteins; Region: LabA; cd10911 488538001624 putative metal binding site [ion binding]; other site 488538001625 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 488538001626 Fe-S cluster binding site [ion binding]; other site 488538001627 DNA binding site [nucleotide binding] 488538001628 active site 488538001629 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 488538001630 SmpB-tmRNA interface; other site 488538001631 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 488538001632 dihydrodipicolinate synthase; Region: dapA; TIGR00674 488538001633 dimer interface [polypeptide binding]; other site 488538001634 active site 488538001635 catalytic residue [active] 488538001636 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 488538001637 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 488538001638 tetramer interface [polypeptide binding]; other site 488538001639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001640 catalytic residue [active] 488538001641 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538001642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001643 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538001644 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 488538001645 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538001646 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538001647 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 488538001648 homotrimer interface [polypeptide binding]; other site 488538001649 Walker A motif; other site 488538001650 GTP binding site [chemical binding]; other site 488538001651 Walker B motif; other site 488538001652 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 488538001653 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 488538001654 putative dimer interface [polypeptide binding]; other site 488538001655 active site pocket [active] 488538001656 putative cataytic base [active] 488538001657 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 488538001658 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 488538001659 catalytic core [active] 488538001660 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 488538001661 30S subunit binding site; other site 488538001662 SprT homologues; Region: SprT; cl01182 488538001663 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 488538001664 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488538001665 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538001666 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 488538001667 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 488538001668 substrate binding site [chemical binding]; other site 488538001669 oxyanion hole (OAH) forming residues; other site 488538001670 trimer interface [polypeptide binding]; other site 488538001671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001672 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 488538001673 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 488538001674 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 488538001675 CbiD; Region: CbiD; cl00828 488538001676 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538001677 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 488538001678 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 488538001679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001680 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 488538001681 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538001682 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 488538001683 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 488538001684 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 488538001685 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 488538001686 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 488538001687 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538001688 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 488538001689 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538001690 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 488538001691 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538001692 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 488538001693 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; cl16911 488538001694 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 488538001695 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 488538001696 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 488538001697 putative active site [active] 488538001698 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-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_C; cd03414 488538001699 putative active site [active] 488538001700 CobD/Cbib protein; Region: CobD_Cbib; cl00561 488538001701 cobyric acid synthase; Provisional; Region: PRK00784 488538001702 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001703 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 488538001704 catalytic triad [active] 488538001705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001706 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 488538001707 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 488538001708 homodimer interface [polypeptide binding]; other site 488538001709 Walker A motif; other site 488538001710 ATP binding site [chemical binding]; other site 488538001711 hydroxycobalamin binding site [chemical binding]; other site 488538001712 Walker B motif; other site 488538001713 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 488538001714 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 488538001715 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 488538001716 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 488538001717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001718 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 488538001719 HupE / UreJ protein; Region: HupE_UreJ; cl01011 488538001720 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 488538001721 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 488538001722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001723 homodimer interface [polypeptide binding]; other site 488538001724 catalytic residue [active] 488538001725 L-asparaginase II; Region: Asparaginase_II; cl01842 488538001726 hypothetical protein; Provisional; Region: PRK06148 488538001727 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538001728 active site 488538001729 ATP binding site [chemical binding]; other site 488538001730 substrate binding site [chemical binding]; other site 488538001731 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 488538001732 inhibitor-cofactor binding pocket; inhibition site 488538001733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538001734 catalytic residue [active] 488538001735 short chain dehydrogenase; Provisional; Region: PRK06101 488538001736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001737 NAD(P) binding site [chemical binding]; other site 488538001738 active site 488538001739 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 488538001740 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 488538001741 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 488538001742 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; cl16911 488538001743 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 488538001744 S-adenosylmethionine binding site [chemical binding]; other site 488538001745 Uncharacterized conserved protein [Function unknown]; Region: COG3496 488538001746 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 488538001747 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 488538001748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001749 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 488538001750 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 488538001751 active site 488538001752 catalytic residues [active] 488538001753 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 488538001754 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 488538001755 active site 488538001756 catalytic tetrad [active] 488538001757 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 488538001758 Protein of unknown function (DUF952); Region: DUF952; cl01393 488538001759 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 488538001760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001762 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 488538001763 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 488538001764 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 488538001765 active site 488538001766 Fe binding site [ion binding]; other site 488538001767 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 488538001768 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 488538001769 dimer interface [polypeptide binding]; other site 488538001770 conserved gate region; other site 488538001771 putative PBP binding loops; other site 488538001772 ABC-ATPase subunit interface; other site 488538001773 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 488538001774 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001775 Walker A/P-loop; other site 488538001776 ATP binding site [chemical binding]; other site 488538001777 Q-loop/lid; other site 488538001778 ABC transporter signature motif; other site 488538001779 Walker B; other site 488538001780 D-loop; other site 488538001781 H-loop/switch region; other site 488538001782 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 488538001783 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 488538001784 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 488538001785 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538001786 putative substrate translocation pore; other site 488538001787 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 488538001788 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 488538001789 Fatty acid desaturase; Region: FA_desaturase; pfam00487 488538001790 putative di-iron ligands [ion binding]; other site 488538001791 Protein of unknown function (DUF328); Region: DUF328; cl01143 488538001792 allantoate amidohydrolase; Reviewed; Region: PRK12893 488538001793 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 488538001794 active site 488538001795 metal binding site [ion binding]; metal-binding site 488538001796 dimer interface [polypeptide binding]; other site 488538001797 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 488538001798 Amidase; Region: Amidase; cl11426 488538001799 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 488538001800 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538001801 Walker A/P-loop; other site 488538001802 ATP binding site [chemical binding]; other site 488538001803 Q-loop/lid; other site 488538001804 ABC transporter signature motif; other site 488538001805 Walker B; other site 488538001806 D-loop; other site 488538001807 H-loop/switch region; other site 488538001808 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538001809 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538001810 Walker A/P-loop; other site 488538001811 ATP binding site [chemical binding]; other site 488538001812 Q-loop/lid; other site 488538001813 ABC transporter signature motif; other site 488538001814 Walker B; other site 488538001815 D-loop; other site 488538001816 H-loop/switch region; other site 488538001817 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538001818 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 488538001819 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 488538001820 dimer interface [polypeptide binding]; other site 488538001821 conserved gate region; other site 488538001822 putative PBP binding loops; other site 488538001823 ABC-ATPase subunit interface; other site 488538001824 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 488538001825 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 488538001826 dimer interface [polypeptide binding]; other site 488538001827 conserved gate region; other site 488538001828 putative PBP binding loops; other site 488538001829 ABC-ATPase subunit interface; other site 488538001830 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_13; cd08517 488538001831 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 488538001832 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 488538001833 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 488538001834 active site 488538001835 catalytic tetrad [active] 488538001836 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 488538001837 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 488538001838 ligand binding site [chemical binding]; other site 488538001839 flexible hinge region; other site 488538001840 Helix-turn-helix domains; Region: HTH; cl00088 488538001841 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 488538001842 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 488538001843 Walker A/P-loop; other site 488538001844 ATP binding site [chemical binding]; other site 488538001845 Q-loop/lid; other site 488538001846 ABC transporter signature motif; other site 488538001847 Walker B; other site 488538001848 D-loop; other site 488538001849 H-loop/switch region; other site 488538001850 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 488538001851 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 488538001852 GatB domain; Region: GatB_Yqey; cl11497 488538001853 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 488538001854 Amidase; Region: Amidase; cl11426 488538001855 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 488538001856 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 488538001857 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 488538001858 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 488538001859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001860 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 488538001861 dihydroorotase; Validated; Region: pyrC; PRK09357 488538001862 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 488538001863 active site 488538001864 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 488538001865 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 488538001866 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 488538001867 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 488538001868 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 488538001869 active site 488538001870 interdomain interaction site; other site 488538001871 putative metal-binding site [ion binding]; other site 488538001872 nucleotide binding site [chemical binding]; other site 488538001873 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 488538001874 domain I; other site 488538001875 DNA binding groove [nucleotide binding] 488538001876 phosphate binding site [ion binding]; other site 488538001877 domain II; other site 488538001878 domain III; other site 488538001879 nucleotide binding site [chemical binding]; other site 488538001880 catalytic site [active] 488538001881 domain IV; other site 488538001882 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 488538001883 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 488538001884 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 488538001885 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 488538001886 ribonuclease R; Region: RNase_R; TIGR02063 488538001887 RNB domain; Region: RNB; pfam00773 488538001888 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 488538001889 RNA binding site [nucleotide binding]; other site 488538001890 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 488538001891 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 488538001892 fructokinase; Reviewed; Region: PRK09557 488538001893 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 488538001894 ribonuclease D; Region: rnd; TIGR01388 488538001895 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 488538001896 catalytic site [active] 488538001897 putative active site [active] 488538001898 putative substrate binding site [chemical binding]; other site 488538001899 HRDC domain; Region: HRDC; cl02578 488538001900 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 488538001901 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 488538001902 putative NAD(P) binding site [chemical binding]; other site 488538001903 putative active site [active] 488538001904 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538001905 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 488538001906 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 488538001907 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 488538001908 dimerization interface [polypeptide binding]; other site 488538001909 putative ATP binding site [chemical binding]; other site 488538001910 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 488538001911 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 488538001912 active site 488538001913 substrate binding site [chemical binding]; other site 488538001914 cosubstrate binding site; other site 488538001915 catalytic site [active] 488538001916 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 488538001917 active site 488538001918 multimer interface [polypeptide binding]; other site 488538001919 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 488538001920 multifunctional aminopeptidase A; Provisional; Region: PRK00913 488538001921 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 488538001922 interface (dimer of trimers) [polypeptide binding]; other site 488538001923 Substrate-binding/catalytic site; other site 488538001924 Zn-binding sites [ion binding]; other site 488538001925 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 488538001926 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 488538001927 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 488538001928 SurA N-terminal domain; Region: SurA_N_3; cl07813 488538001929 PPIC-type PPIASE domain; Region: Rotamase; cl08278 488538001930 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 488538001931 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 488538001932 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; cl16911 488538001933 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 488538001934 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 488538001935 catalytic site [active] 488538001936 G-X2-G-X-G-K; other site 488538001937 YceG-like family; Region: YceG; pfam02618 488538001938 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 488538001939 dimerization interface [polypeptide binding]; other site 488538001940 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 488538001941 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 488538001942 dimer interface [polypeptide binding]; other site 488538001943 active site 488538001944 Phosphopantetheine attachment site; Region: PP-binding; cl09936 488538001945 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 488538001946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001947 NAD(P) binding site [chemical binding]; other site 488538001948 active site 488538001949 Acyl transferase domain; Region: Acyl_transf_1; cl08282 488538001950 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 488538001951 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 488538001952 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 488538001953 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 488538001954 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 488538001955 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 488538001956 replicative DNA helicase; Provisional; Region: PRK09165 488538001957 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 488538001958 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 488538001959 Walker A motif; other site 488538001960 ATP binding site [chemical binding]; other site 488538001961 Walker B motif; other site 488538001962 DNA binding loops [nucleotide binding] 488538001963 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 488538001964 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 488538001965 active site 488538001966 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488538001967 dimer interface [polypeptide binding]; other site 488538001968 substrate binding site [chemical binding]; other site 488538001969 catalytic residues [active] 488538001970 Permease; Region: Permease; cl00510 488538001971 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 488538001972 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 488538001973 Walker A/P-loop; other site 488538001974 ATP binding site [chemical binding]; other site 488538001975 Q-loop/lid; other site 488538001976 ABC transporter signature motif; other site 488538001977 Walker B; other site 488538001978 D-loop; other site 488538001979 H-loop/switch region; other site 488538001980 DNA repair protein RadA; Provisional; Region: PRK11823 488538001981 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 488538001982 Walker A motif/ATP binding site; other site 488538001983 ATP binding site [chemical binding]; other site 488538001984 Walker B motif; other site 488538001985 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 488538001986 Colicin V production protein; Region: Colicin_V; cl00567 488538001987 amidophosphoribosyltransferase; Provisional; Region: PRK09123 488538001988 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 488538001989 active site 488538001990 tetramer interface [polypeptide binding]; other site 488538001991 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538001992 active site 488538001993 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 488538001994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538001995 NAD(P) binding site [chemical binding]; other site 488538001996 active site 488538001997 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 488538001998 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; cl16911 488538001999 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 488538002000 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 488538002001 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; cl16911 488538002002 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 488538002003 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 488538002004 S-adenosylmethionine binding site [chemical binding]; other site 488538002005 Flagellin N-methylase; Region: FliB; cl00497 488538002006 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 488538002007 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 488538002008 C-terminal domain interface [polypeptide binding]; other site 488538002009 GSH binding site (G-site) [chemical binding]; other site 488538002010 dimer interface [polypeptide binding]; other site 488538002011 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 488538002012 putative dimer interface [polypeptide binding]; other site 488538002013 N-terminal domain interface [polypeptide binding]; other site 488538002014 active site 488538002015 Flavin Reductases; Region: FlaRed; cl00801 488538002016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 488538002017 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 488538002018 Rhomboid family; Region: Rhomboid; cl11446 488538002019 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 488538002020 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 488538002021 putative MPT binding site; other site 488538002022 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 488538002023 active site 488538002024 hypothetical protein; Reviewed; Region: PRK00024 488538002025 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 488538002026 MPN+ (JAMM) motif; other site 488538002027 Zinc-binding site [ion binding]; other site 488538002028 adenylosuccinate lyase; Provisional; Region: PRK07492 488538002029 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 488538002030 tetramer interface [polypeptide binding]; other site 488538002031 active site 488538002032 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 488538002033 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 488538002034 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 488538002035 ATP binding site [chemical binding]; other site 488538002036 active site 488538002037 substrate binding site [chemical binding]; other site 488538002038 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 488538002039 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 488538002040 putative active site [active] 488538002041 catalytic triad [active] 488538002042 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 488538002043 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 488538002044 dimerization interface [polypeptide binding]; other site 488538002045 ATP binding site [chemical binding]; other site 488538002046 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 488538002047 dimerization interface [polypeptide binding]; other site 488538002048 ATP binding site [chemical binding]; other site 488538002049 BolA-like protein; Region: BolA; cl00386 488538002050 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 488538002051 putative GSH binding site [chemical binding]; other site 488538002052 catalytic residues [active] 488538002053 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 488538002054 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 488538002055 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 488538002056 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 488538002057 RNA binding surface [nucleotide binding]; other site 488538002058 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 488538002059 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 488538002060 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 488538002061 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 488538002062 active site 488538002063 catalytic residues [active] 488538002064 metal binding site [ion binding]; metal-binding site 488538002065 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 488538002066 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 488538002067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538002068 active site 488538002069 HIGH motif; other site 488538002070 nucleotide binding site [chemical binding]; other site 488538002071 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 488538002072 KMSKS motif; other site 488538002073 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 488538002074 tRNA binding surface [nucleotide binding]; other site 488538002075 anticodon binding site; other site 488538002076 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 488538002077 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 488538002078 active site 488538002079 HIGH motif; other site 488538002080 KMSKS motif; other site 488538002081 NAD synthetase; Provisional; Region: PRK13981 488538002082 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 488538002083 multimer interface [polypeptide binding]; other site 488538002084 active site 488538002085 catalytic triad [active] 488538002086 protein interface 1 [polypeptide binding]; other site 488538002087 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 488538002088 homodimer interface [polypeptide binding]; other site 488538002089 NAD binding pocket [chemical binding]; other site 488538002090 ATP binding pocket [chemical binding]; other site 488538002091 Mg binding site [ion binding]; other site 488538002092 active-site loop [active] 488538002093 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538002094 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 488538002095 active site 488538002096 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 488538002097 glutathione reductase; Validated; Region: PRK06116 488538002098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538002099 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488538002100 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 488538002101 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 488538002102 AMP-binding enzyme; Region: AMP-binding; cl15778 488538002103 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538002104 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538002105 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 488538002106 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 488538002107 endonuclease III; Region: ENDO3c; smart00478 488538002108 minor groove reading motif; other site 488538002109 helix-hairpin-helix signature motif; other site 488538002110 substrate binding pocket [chemical binding]; other site 488538002111 active site 488538002112 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 488538002113 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 488538002114 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 488538002115 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 488538002116 FAD binding domain; Region: FAD_binding_4; pfam01565 488538002117 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 488538002118 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 488538002119 putative active site [active] 488538002120 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538002121 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 488538002122 OstA-like protein; Region: OstA; cl00844 488538002123 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 488538002124 Organic solvent tolerance protein; Region: OstA_C; pfam04453 488538002125 putative acetyltransferase; Provisional; Region: PRK03624 488538002126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538002127 Coenzyme A binding pocket [chemical binding]; other site 488538002128 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 488538002129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538002130 Coenzyme A binding pocket [chemical binding]; other site 488538002131 Protein of unknown function (DUF805); Region: DUF805; cl01224 488538002132 Predicted acetyltransferase [General function prediction only]; Region: COG3153 488538002133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538002134 Coenzyme A binding pocket [chemical binding]; other site 488538002135 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 488538002136 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 488538002137 glutaminase active site [active] 488538002138 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 488538002139 dimer interface [polypeptide binding]; other site 488538002140 active site 488538002141 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 488538002142 dimer interface [polypeptide binding]; other site 488538002143 active site 488538002144 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 488538002145 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 488538002146 Substrate binding site; other site 488538002147 Mg++ binding site; other site 488538002148 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 488538002149 active site 488538002150 substrate binding site [chemical binding]; other site 488538002151 CoA binding site [chemical binding]; other site 488538002152 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 488538002153 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 488538002154 putative ribose interaction site [chemical binding]; other site 488538002155 putative ADP binding site [chemical binding]; other site 488538002156 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538002157 active site 488538002158 nucleotide binding site [chemical binding]; other site 488538002159 HIGH motif; other site 488538002160 KMSKS motif; other site 488538002161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 488538002162 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 488538002163 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 488538002164 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 488538002165 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 488538002166 rod shape-determining protein MreD; Region: MreD; cl01087 488538002167 rod shape-determining protein MreC; Provisional; Region: PRK13922 488538002168 rod shape-determining protein MreC; Region: MreC; pfam04085 488538002169 rod shape-determining protein MreB; Provisional; Region: PRK13927 488538002170 Cell division protein FtsA; Region: FtsA; cl11496 488538002171 ketol-acid reductoisomerase; Provisional; Region: PRK05479 488538002172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002173 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 488538002174 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 488538002175 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 488538002176 putative valine binding site [chemical binding]; other site 488538002177 dimer interface [polypeptide binding]; other site 488538002178 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 488538002179 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 488538002180 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538002181 PYR/PP interface [polypeptide binding]; other site 488538002182 dimer interface [polypeptide binding]; other site 488538002183 TPP binding site [chemical binding]; other site 488538002184 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538002185 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 488538002186 TPP-binding site [chemical binding]; other site 488538002187 dimer interface [polypeptide binding]; other site 488538002188 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002189 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 488538002190 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 488538002191 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 488538002192 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 488538002193 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 488538002194 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 488538002195 protein binding site [polypeptide binding]; other site 488538002196 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 488538002197 protein binding site [polypeptide binding]; other site 488538002198 HflC protein; Region: hflC; TIGR01932 488538002199 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 488538002200 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 488538002201 HflK protein; Region: hflK; TIGR01933 488538002202 Domain of unknown function DUF59; Region: DUF59; cl00941 488538002203 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 488538002204 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 488538002205 Walker A motif; other site 488538002206 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 488538002207 folate binding site [chemical binding]; other site 488538002208 NADP+ binding site [chemical binding]; other site 488538002209 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 488538002210 dimerization interface [polypeptide binding]; other site 488538002211 active site 488538002212 Stringent starvation protein B; Region: SspB; cl01120 488538002213 fumarate hydratase; Provisional; Region: PRK15389 488538002214 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 488538002215 Fumarase C-terminus; Region: Fumerase_C; cl00795 488538002216 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 488538002217 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 488538002218 Cysteine-rich domain; Region: CCG; pfam02754 488538002219 Cysteine-rich domain; Region: CCG; pfam02754 488538002220 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 488538002221 FAD binding domain; Region: FAD_binding_4; pfam01565 488538002222 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 488538002223 FAD binding domain; Region: FAD_binding_4; pfam01565 488538002224 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 488538002225 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 488538002226 Phosphoglycerate kinase; Region: PGK; pfam00162 488538002227 substrate binding site [chemical binding]; other site 488538002228 hinge regions; other site 488538002229 ADP binding site [chemical binding]; other site 488538002230 catalytic site [active] 488538002231 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; cl16911 488538002232 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 488538002233 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 488538002234 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 488538002235 AzlC protein; Region: AzlC; cl00570 488538002236 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 488538002237 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 488538002238 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538002239 putative substrate translocation pore; other site 488538002240 Amino acid synthesis; Region: AA_synth; pfam06684 488538002241 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 488538002242 aromatic arch; other site 488538002243 DCoH dimer interaction site [polypeptide binding]; other site 488538002244 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 488538002245 DCoH tetramer interaction site [polypeptide binding]; other site 488538002246 substrate binding site [chemical binding]; other site 488538002247 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 488538002248 Protein of unknown function (DUF461); Region: DUF461; cl01071 488538002249 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538002250 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 488538002251 phosphate binding site [ion binding]; other site 488538002252 Cytochrome c; Region: Cytochrom_C; cl11414 488538002253 CcmE; Region: CcmE; cl00994 488538002254 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 488538002255 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 488538002256 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 488538002257 catalytic residues [active] 488538002258 central insert; other site 488538002259 Cytochrome C biogenesis protein; Region: CcmH; cl01179 488538002260 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 488538002261 EamA-like transporter family; Region: EamA; cl01037 488538002262 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 488538002263 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 488538002264 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538002265 NAD(P) binding site [chemical binding]; other site 488538002266 catalytic residues [active] 488538002267 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 488538002268 active site 488538002269 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 488538002270 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 488538002271 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538002272 NAD binding site [chemical binding]; other site 488538002273 catalytic residues [active] 488538002274 EamA-like transporter family; Region: EamA; cl01037 488538002275 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538002276 EamA-like transporter family; Region: EamA; cl01037 488538002277 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 488538002278 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 488538002279 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 488538002280 Ligand Binding Site [chemical binding]; other site 488538002281 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 488538002282 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 488538002283 dimer interface [polypeptide binding]; other site 488538002284 conserved gate region; other site 488538002285 putative PBP binding loops; other site 488538002286 ABC-ATPase subunit interface; other site 488538002287 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 488538002288 dimer interface [polypeptide binding]; other site 488538002289 conserved gate region; other site 488538002290 putative PBP binding loops; other site 488538002291 ABC-ATPase subunit interface; other site 488538002292 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 488538002293 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 488538002294 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 488538002295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002296 Walker A/P-loop; other site 488538002297 ATP binding site [chemical binding]; other site 488538002298 Q-loop/lid; other site 488538002299 ABC transporter signature motif; other site 488538002300 Walker B; other site 488538002301 D-loop; other site 488538002302 H-loop/switch region; other site 488538002303 TOBE domain; Region: TOBE_2; cl01440 488538002304 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488538002305 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488538002306 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 488538002307 active site 488538002308 Protein of unknown function DUF262; Region: DUF262; cl14890 488538002309 Protein of unknown function DUF262; Region: DUF262; cl14890 488538002310 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 488538002311 Active Sites [active] 488538002312 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488538002313 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488538002314 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 488538002315 active site 488538002316 Arginase family; Region: Arginase; cl00306 488538002317 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538002318 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 488538002319 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; cd00640 488538002320 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538002321 catalytic residue [active] 488538002322 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488538002323 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488538002324 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 488538002325 active site 488538002326 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 488538002327 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 488538002328 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538002329 phosphate binding site [ion binding]; other site 488538002330 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 488538002331 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 488538002332 Integral membrane protein TerC family; Region: TerC; cl10468 488538002333 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538002334 EamA-like transporter family; Region: EamA; cl01037 488538002335 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 488538002336 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 488538002337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002338 homodimer interface [polypeptide binding]; other site 488538002339 catalytic residue [active] 488538002340 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 488538002341 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 488538002342 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538002343 catalytic residue [active] 488538002344 thiamine pyrophosphate protein; Validated; Region: PRK08199 488538002345 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538002346 PYR/PP interface [polypeptide binding]; other site 488538002347 dimer interface [polypeptide binding]; other site 488538002348 TPP binding site [chemical binding]; other site 488538002349 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538002350 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 488538002351 TPP-binding site [chemical binding]; other site 488538002352 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 488538002353 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 488538002354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002355 homodimer interface [polypeptide binding]; other site 488538002356 catalytic residue [active] 488538002357 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 488538002358 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 488538002359 TM-ABC transporter signature motif; other site 488538002360 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 488538002361 TM-ABC transporter signature motif; other site 488538002362 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488538002363 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 488538002364 Walker A/P-loop; other site 488538002365 ATP binding site [chemical binding]; other site 488538002366 Q-loop/lid; other site 488538002367 ABC transporter signature motif; other site 488538002368 Walker B; other site 488538002369 D-loop; other site 488538002370 H-loop/switch region; other site 488538002371 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538002372 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 488538002373 Walker A/P-loop; other site 488538002374 ATP binding site [chemical binding]; other site 488538002375 Q-loop/lid; other site 488538002376 ABC transporter signature motif; other site 488538002377 Walker B; other site 488538002378 D-loop; other site 488538002379 H-loop/switch region; other site 488538002380 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 488538002381 putative ligand binding site [chemical binding]; other site 488538002382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002383 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 488538002384 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538002385 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 488538002386 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 488538002387 AMP-binding enzyme; Region: AMP-binding; cl15778 488538002388 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538002389 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 488538002390 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 488538002391 Na binding site [ion binding]; other site 488538002392 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 488538002393 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 488538002394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 488538002395 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 488538002396 homodimer interface [polypeptide binding]; other site 488538002397 substrate-cofactor binding pocket; other site 488538002398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002399 catalytic residue [active] 488538002400 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 488538002401 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 488538002402 HflX GTPase family; Region: HflX; cd01878 488538002403 G1 box; other site 488538002404 GTP/Mg2+ binding site [chemical binding]; other site 488538002405 Switch I region; other site 488538002406 G2 box; other site 488538002407 G3 box; other site 488538002408 Switch II region; other site 488538002409 G4 box; other site 488538002410 G5 box; other site 488538002411 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 488538002412 classical (c) SDRs; Region: SDR_c; cd05233 488538002413 NAD(P) binding site [chemical binding]; other site 488538002414 active site 488538002415 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 488538002416 DNA photolyase; Region: DNA_photolyase; pfam00875 488538002417 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 488538002418 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 488538002419 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 488538002420 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 488538002421 NAD(P) binding site [chemical binding]; other site 488538002422 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 488538002423 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 488538002424 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 488538002425 Peptidase family M23; Region: Peptidase_M23; pfam01551 488538002426 Ion channel; Region: Ion_trans_2; cl11596 488538002427 tellurium resistance terB-like protein; Region: terB_like; cl11965 488538002428 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 488538002429 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 488538002430 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 488538002431 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 488538002432 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 488538002433 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 488538002434 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 488538002435 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 488538002436 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 488538002437 ligand binding site [chemical binding]; other site 488538002438 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 488538002439 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 488538002440 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 488538002441 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 488538002442 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 488538002443 FliP family; Region: FliP; cl00593 488538002444 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 488538002445 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 488538002446 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 488538002447 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 488538002448 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 488538002449 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 488538002450 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 488538002451 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 488538002452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002453 Walker A motif; other site 488538002454 ATP binding site [chemical binding]; other site 488538002455 Walker B motif; other site 488538002456 Flagellar assembly protein FliH; Region: FliH; pfam02108 488538002457 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 488538002458 FliG C-terminal domain; Region: FliG_C; pfam01706 488538002459 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 488538002460 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 488538002461 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 488538002462 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 488538002463 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 488538002464 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 488538002465 Walker A motif; other site 488538002466 ATP binding site [chemical binding]; other site 488538002467 Walker B motif; other site 488538002468 arginine finger; other site 488538002469 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 488538002470 Walker A motif; other site 488538002471 ATP binding site [chemical binding]; other site 488538002472 Walker B motif; other site 488538002473 arginine finger; other site 488538002474 Helix-turn-helix domains; Region: HTH; cl00088 488538002475 Flagellar protein FliS; Region: FliS; cl00654 488538002476 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 488538002477 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 488538002478 Cl- selectivity filter; other site 488538002479 Cl- binding residues [ion binding]; other site 488538002480 pore gating glutamate residue; other site 488538002481 dimer interface [polypeptide binding]; other site 488538002482 FOG: CBS domain [General function prediction only]; Region: COG0517 488538002483 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 488538002484 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 488538002485 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 488538002486 flagellin; Provisional; Region: PRK12806 488538002487 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 488538002488 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 488538002489 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 488538002490 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 488538002491 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 488538002492 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 488538002493 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 488538002494 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 488538002495 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 488538002496 Rod binding protein; Region: Rod-binding; cl01626 488538002497 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 488538002498 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 488538002499 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 488538002500 Flagellar L-ring protein; Region: FlgH; cl00905 488538002501 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 488538002502 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 488538002503 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 488538002504 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 488538002505 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 488538002506 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 488538002507 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 488538002508 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 488538002509 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 488538002510 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 488538002511 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 488538002512 FlgD Ig-like domain; Region: FlgD_ig; cl15790 488538002513 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 488538002514 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 488538002515 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 488538002516 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 488538002517 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 488538002518 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 488538002519 SAF-like; Region: SAF_2; pfam13144 488538002520 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 488538002521 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 488538002522 LPP20 lipoprotein; Region: LPP20; cl15824 488538002523 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 488538002524 FHIPEP family; Region: FHIPEP; pfam00771 488538002525 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 488538002526 AAA domain; Region: AAA_25; pfam13481 488538002527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002528 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 488538002529 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 488538002530 P-loop; other site 488538002531 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 488538002532 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 488538002533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 488538002534 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 488538002535 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 488538002536 DNA binding residues [nucleotide binding] 488538002537 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 488538002538 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 488538002539 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 488538002540 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 488538002541 Sel1 repeat; Region: Sel1; cl02723 488538002542 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 488538002543 Sensors of blue-light using FAD; Region: BLUF; cl04855 488538002544 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 488538002545 CoA-transferase family III; Region: CoA_transf_3; pfam02515 488538002546 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 488538002547 Uncharacterized conserved protein [Function unknown]; Region: COG3777 488538002548 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 488538002549 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 488538002550 active site 2 [active] 488538002551 active site 1 [active] 488538002552 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 488538002553 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 488538002554 active site 488538002555 Sulfate transporter family; Region: Sulfate_transp; cl15842 488538002556 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 488538002557 Sulfate transporter family; Region: Sulfate_transp; cl15842 488538002558 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 488538002559 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 488538002560 active site 488538002561 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488538002562 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538002563 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 488538002564 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 488538002565 Helix-turn-helix domains; Region: HTH; cl00088 488538002566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002567 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 488538002568 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 488538002569 glycerol kinase; Provisional; Region: glpK; PRK00047 488538002570 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 488538002571 N- and C-terminal domain interface [polypeptide binding]; other site 488538002572 active site 488538002573 MgATP binding site [chemical binding]; other site 488538002574 catalytic site [active] 488538002575 metal binding site [ion binding]; metal-binding site 488538002576 glycerol binding site [chemical binding]; other site 488538002577 homotetramer interface [polypeptide binding]; other site 488538002578 homodimer interface [polypeptide binding]; other site 488538002579 FBP binding site [chemical binding]; other site 488538002580 protein IIAGlc interface [polypeptide binding]; other site 488538002581 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 488538002582 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488538002583 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 488538002584 dimer interface [polypeptide binding]; other site 488538002585 conserved gate region; other site 488538002586 ABC-ATPase subunit interface; other site 488538002587 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 488538002588 dimer interface [polypeptide binding]; other site 488538002589 conserved gate region; other site 488538002590 putative PBP binding loops; other site 488538002591 ABC-ATPase subunit interface; other site 488538002592 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 488538002593 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 488538002594 Walker A/P-loop; other site 488538002595 ATP binding site [chemical binding]; other site 488538002596 Q-loop/lid; other site 488538002597 ABC transporter signature motif; other site 488538002598 Walker B; other site 488538002599 D-loop; other site 488538002600 H-loop/switch region; other site 488538002601 TOBE domain; Region: TOBE_2; cl01440 488538002602 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 488538002603 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 488538002604 Walker A/P-loop; other site 488538002605 ATP binding site [chemical binding]; other site 488538002606 Q-loop/lid; other site 488538002607 ABC transporter signature motif; other site 488538002608 Walker B; other site 488538002609 D-loop; other site 488538002610 H-loop/switch region; other site 488538002611 TOBE domain; Region: TOBE_2; cl01440 488538002612 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488538002613 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 488538002614 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 488538002615 Helix-turn-helix domains; Region: HTH; cl00088 488538002616 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 488538002617 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 488538002618 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 488538002619 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 488538002620 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 488538002621 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 488538002622 Walker A/P-loop; other site 488538002623 ATP binding site [chemical binding]; other site 488538002624 Q-loop/lid; other site 488538002625 ABC transporter signature motif; other site 488538002626 Walker B; other site 488538002627 D-loop; other site 488538002628 H-loop/switch region; other site 488538002629 ABC-2 type transporter; Region: ABC2_membrane; cl11417 488538002630 Helix-turn-helix domains; Region: HTH; cl00088 488538002631 Rrf2 family protein; Region: rrf2_super; TIGR00738 488538002632 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 488538002633 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 488538002634 FAD binding pocket [chemical binding]; other site 488538002635 FAD binding motif [chemical binding]; other site 488538002636 phosphate binding motif [ion binding]; other site 488538002637 beta-alpha-beta structure motif; other site 488538002638 NAD binding pocket [chemical binding]; other site 488538002639 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 488538002640 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 488538002641 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 488538002642 LysE type translocator; Region: LysE; cl00565 488538002643 Glucuronate isomerase; Region: UxaC; cl00829 488538002644 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 488538002645 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 488538002646 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 488538002647 mannonate dehydratase; Provisional; Region: PRK03906 488538002648 mannonate dehydratase; Region: uxuA; TIGR00695 488538002649 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488538002650 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 488538002651 substrate binding site [chemical binding]; other site 488538002652 ATP binding site [chemical binding]; other site 488538002653 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 488538002654 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 488538002655 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 488538002656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002657 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 488538002658 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 488538002659 ATP-binding site [chemical binding]; other site 488538002660 Gluconate-6-phosphate binding site [chemical binding]; other site 488538002661 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 488538002662 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 488538002663 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 488538002664 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 488538002665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002666 Walker A/P-loop; other site 488538002667 ATP binding site [chemical binding]; other site 488538002668 ABC transporter; Region: ABC_tran; pfam00005 488538002669 Q-loop/lid; other site 488538002670 ABC transporter signature motif; other site 488538002671 Walker B; other site 488538002672 D-loop; other site 488538002673 H-loop/switch region; other site 488538002674 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 488538002675 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 488538002676 hypothetical protein; Provisional; Region: PRK07483 488538002677 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 488538002678 inhibitor-cofactor binding pocket; inhibition site 488538002679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002680 catalytic residue [active] 488538002681 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 488538002682 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 488538002683 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 488538002684 putative active site [active] 488538002685 enoyl-CoA hydratase; Validated; Region: PRK08139 488538002686 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 488538002687 substrate binding site [chemical binding]; other site 488538002688 oxyanion hole (OAH) forming residues; other site 488538002689 trimer interface [polypeptide binding]; other site 488538002690 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 488538002691 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538002692 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 488538002693 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488538002694 DNA binding site [nucleotide binding] 488538002695 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 488538002696 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 488538002697 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 488538002698 trimer interface [polypeptide binding]; other site 488538002699 active site 488538002700 dimer interface [polypeptide binding]; other site 488538002701 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 488538002702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002703 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 488538002704 short chain dehydrogenase; Provisional; Region: PRK06523 488538002705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002706 NAD(P) binding site [chemical binding]; other site 488538002707 active site 488538002708 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 488538002709 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 488538002710 active site 488538002711 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 488538002712 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 488538002713 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 488538002714 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538002715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002716 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 488538002717 (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 488538002718 dimer interaction site [polypeptide binding]; other site 488538002719 substrate-binding tunnel; other site 488538002720 active site 488538002721 catalytic site [active] 488538002722 substrate binding site [chemical binding]; other site 488538002723 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 488538002724 classical (c) SDRs; Region: SDR_c; cd05233 488538002725 NAD(P) binding site [chemical binding]; other site 488538002726 active site 488538002727 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 488538002728 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488538002729 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 488538002730 Walker A/P-loop; other site 488538002731 ATP binding site [chemical binding]; other site 488538002732 Q-loop/lid; other site 488538002733 ABC transporter signature motif; other site 488538002734 Walker B; other site 488538002735 D-loop; other site 488538002736 H-loop/switch region; other site 488538002737 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 488538002738 TM-ABC transporter signature motif; other site 488538002739 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 488538002740 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 488538002741 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 488538002742 TM-ABC transporter signature motif; other site 488538002743 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538002744 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 488538002745 Walker A/P-loop; other site 488538002746 ATP binding site [chemical binding]; other site 488538002747 Q-loop/lid; other site 488538002748 ABC transporter signature motif; other site 488538002749 Walker B; other site 488538002750 D-loop; other site 488538002751 H-loop/switch region; other site 488538002752 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 488538002753 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538002754 putative substrate translocation pore; other site 488538002755 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538002756 Helix-turn-helix domains; Region: HTH; cl00088 488538002757 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 488538002758 putative effector binding pocket; other site 488538002759 dimerization interface [polypeptide binding]; other site 488538002760 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 488538002761 tetramer interface [polypeptide binding]; other site 488538002762 dimer interface [polypeptide binding]; other site 488538002763 active site 488538002764 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 488538002765 active site 488538002766 Fe(II) binding site [ion binding]; other site 488538002767 dimer interface [polypeptide binding]; other site 488538002768 tetramer interface [polypeptide binding]; other site 488538002769 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538002770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 488538002772 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 488538002773 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 488538002774 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 488538002775 active site 488538002776 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 488538002777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002778 active site 488538002779 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538002780 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538002781 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 488538002782 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 488538002783 active site 488538002784 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 488538002785 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538002786 Walker A/P-loop; other site 488538002787 ATP binding site [chemical binding]; other site 488538002788 Q-loop/lid; other site 488538002789 ABC transporter signature motif; other site 488538002790 Walker B; other site 488538002791 D-loop; other site 488538002792 H-loop/switch region; other site 488538002793 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 488538002794 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538002795 Walker A/P-loop; other site 488538002796 ATP binding site [chemical binding]; other site 488538002797 Q-loop/lid; other site 488538002798 ABC transporter signature motif; other site 488538002799 Walker B; other site 488538002800 D-loop; other site 488538002801 H-loop/switch region; other site 488538002802 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538002803 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 488538002804 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 488538002805 dimer interface [polypeptide binding]; other site 488538002806 conserved gate region; other site 488538002807 putative PBP binding loops; other site 488538002808 ABC-ATPase subunit interface; other site 488538002809 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 488538002810 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 488538002811 dimer interface [polypeptide binding]; other site 488538002812 conserved gate region; other site 488538002813 putative PBP binding loops; other site 488538002814 ABC-ATPase subunit interface; other site 488538002815 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 488538002816 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 488538002817 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538002818 Phosphate-starvation-inducible E; Region: PsiE; cl01264 488538002819 OpgC protein; Region: OpgC_C; cl00792 488538002820 Acyltransferase family; Region: Acyl_transf_3; pfam01757 488538002821 Transcriptional regulators [Transcription]; Region: GntR; COG1802 488538002822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488538002823 DNA-binding site [nucleotide binding]; DNA binding site 488538002824 FCD domain; Region: FCD; cl11656 488538002825 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 488538002826 homodimer interface [polypeptide binding]; other site 488538002827 substrate-cofactor binding pocket; other site 488538002828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002829 catalytic residue [active] 488538002830 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488538002831 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 488538002832 Walker A/P-loop; other site 488538002833 ATP binding site [chemical binding]; other site 488538002834 Q-loop/lid; other site 488538002835 ABC transporter signature motif; other site 488538002836 Walker B; other site 488538002837 D-loop; other site 488538002838 H-loop/switch region; other site 488538002839 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488538002840 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 488538002841 dimer interface [polypeptide binding]; other site 488538002842 conserved gate region; other site 488538002843 putative PBP binding loops; other site 488538002844 ABC-ATPase subunit interface; other site 488538002845 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488538002846 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 488538002847 dimer interface [polypeptide binding]; other site 488538002848 conserved gate region; other site 488538002849 putative PBP binding loops; other site 488538002850 ABC-ATPase subunit interface; other site 488538002851 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 488538002852 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488538002853 substrate binding pocket [chemical binding]; other site 488538002854 membrane-bound complex binding site; other site 488538002855 hinge residues; other site 488538002856 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 488538002857 Proline dehydrogenase; Region: Pro_dh; cl03282 488538002858 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 488538002859 NAD(P) binding site [chemical binding]; other site 488538002860 catalytic residues [active] 488538002861 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 488538002862 Helix-turn-helix domains; Region: HTH; cl00088 488538002863 AsnC family; Region: AsnC_trans_reg; pfam01037 488538002864 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 488538002865 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 488538002866 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 488538002867 sorbitol dehydrogenase; Provisional; Region: PRK07067 488538002868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002869 NAD(P) binding site [chemical binding]; other site 488538002870 active site 488538002871 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 488538002872 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 488538002873 Walker A/P-loop; other site 488538002874 ATP binding site [chemical binding]; other site 488538002875 Q-loop/lid; other site 488538002876 ABC transporter signature motif; other site 488538002877 Walker B; other site 488538002878 D-loop; other site 488538002879 H-loop/switch region; other site 488538002880 TOBE domain; Region: TOBE_2; cl01440 488538002881 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488538002882 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 488538002883 dimer interface [polypeptide binding]; other site 488538002884 conserved gate region; other site 488538002885 putative PBP binding loops; other site 488538002886 ABC-ATPase subunit interface; other site 488538002887 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 488538002888 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 488538002889 dimer interface [polypeptide binding]; other site 488538002890 conserved gate region; other site 488538002891 putative PBP binding loops; other site 488538002892 ABC-ATPase subunit interface; other site 488538002893 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488538002894 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 488538002895 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488538002896 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488538002897 DNA binding site [nucleotide binding] 488538002898 domain linker motif; other site 488538002899 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 488538002900 dimerization interface [polypeptide binding]; other site 488538002901 ligand binding site [chemical binding]; other site 488538002902 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538002903 active site 488538002904 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 488538002905 putative substrate binding site [chemical binding]; other site 488538002906 putative ATP binding site [chemical binding]; other site 488538002907 aspartate aminotransferase; Provisional; Region: PRK05764 488538002908 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 488538002909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002910 homodimer interface [polypeptide binding]; other site 488538002911 catalytic residue [active] 488538002912 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 488538002913 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 488538002914 active site 488538002915 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538002916 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 488538002917 putative ADP-binding pocket [chemical binding]; other site 488538002918 MatE; Region: MatE; cl10513 488538002919 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 488538002920 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538002921 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 488538002922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002923 NAD(P) binding site [chemical binding]; other site 488538002924 active site 488538002925 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 488538002926 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 488538002927 inhibitor-cofactor binding pocket; inhibition site 488538002928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538002929 catalytic residue [active] 488538002930 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 488538002931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002932 NAD(P) binding site [chemical binding]; other site 488538002933 active site 488538002934 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 488538002935 substrate binding site; other site 488538002936 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 488538002937 Predicted membrane protein [Function unknown]; Region: COG3463 488538002938 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 488538002939 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 488538002940 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 488538002941 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 488538002942 extended (e) SDRs; Region: SDR_e; cd08946 488538002943 NAD(P) binding site [chemical binding]; other site 488538002944 active site 488538002945 substrate binding site [chemical binding]; other site 488538002946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002947 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 488538002948 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 488538002949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002950 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 488538002951 NAD(P) binding site [chemical binding]; other site 488538002952 active site 488538002953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538002954 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 488538002955 NAD(P) binding site [chemical binding]; other site 488538002956 active site 488538002957 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 488538002958 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488538002959 active site 488538002960 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 488538002961 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538002962 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 488538002963 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 488538002964 Ligand binding site; other site 488538002965 Putative Catalytic site; other site 488538002966 DXD motif; other site 488538002967 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 488538002968 Methyltransferase domain; Region: Methyltransf_31; pfam13847 488538002969 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 488538002970 S-adenosylmethionine binding site [chemical binding]; other site 488538002971 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 488538002972 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538002973 PYR/PP interface [polypeptide binding]; other site 488538002974 dimer interface [polypeptide binding]; other site 488538002975 TPP binding site [chemical binding]; other site 488538002976 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538002977 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 488538002978 TPP-binding site [chemical binding]; other site 488538002979 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 488538002980 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 488538002981 active site 488538002982 Int/Topo IB signature motif; other site 488538002983 DNA binding site [nucleotide binding] 488538002984 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 488538002985 Cation efflux family; Region: Cation_efflux; cl00316 488538002986 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488538002987 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 488538002988 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 488538002989 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 488538002990 Cu(I) binding site [ion binding]; other site 488538002991 Protein of unknown function (DUF461); Region: DUF461; cl01071 488538002992 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 488538002993 Cu(I) binding site [ion binding]; other site 488538002994 Peptidase family M23; Region: Peptidase_M23; pfam01551 488538002995 Protein of unknown function, DUF; Region: DUF411; cl01142 488538002996 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 488538002997 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 488538002998 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 488538002999 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 488538003000 putative active site [active] 488538003001 catalytic triad [active] 488538003002 putative dimer interface [polypeptide binding]; other site 488538003003 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; cl01155 488538003004 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 488538003005 active site 488538003006 catalytic residues [active] 488538003007 DNA binding site [nucleotide binding] 488538003008 Int/Topo IB signature motif; other site 488538003009 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 488538003010 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 488538003011 active site 488538003012 catalytic residues [active] 488538003013 DNA binding site [nucleotide binding] 488538003014 Int/Topo IB signature motif; other site 488538003015 MarC family integral membrane protein; Region: MarC; cl00919 488538003016 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 488538003017 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 488538003018 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 488538003019 Ligand Binding Site [chemical binding]; other site 488538003020 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 488538003021 catalytic loop [active] 488538003022 iron binding site [ion binding]; other site 488538003023 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 488538003024 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 488538003025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538003026 catalytic residue [active] 488538003027 serine O-acetyltransferase; Region: cysE; TIGR01172 488538003028 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 488538003029 trimer interface [polypeptide binding]; other site 488538003030 active site 488538003031 substrate binding site [chemical binding]; other site 488538003032 CoA binding site [chemical binding]; other site 488538003033 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 488538003034 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538003035 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 488538003036 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 488538003037 active site 488538003038 HIGH motif; other site 488538003039 dimer interface [polypeptide binding]; other site 488538003040 KMSKS motif; other site 488538003041 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 488538003042 Protein of unknown function; Region: DUF3971; pfam13116 488538003043 AsmA-like C-terminal region; Region: AsmA_2; cl15864 488538003044 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 488538003045 catalytic triad [active] 488538003046 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 488538003047 dinuclear metal binding motif [ion binding]; other site 488538003048 peptide chain release factor 2; Validated; Region: prfB; PRK00578 488538003049 RF-1 domain; Region: RF-1; cl02875 488538003050 RF-1 domain; Region: RF-1; cl02875 488538003051 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 488538003052 Transglycosylase; Region: Transgly; cl07896 488538003053 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 488538003054 AMIN domain; Region: AMIN; pfam11741 488538003055 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 488538003056 active site 488538003057 metal binding site [ion binding]; metal-binding site 488538003058 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 488538003059 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 488538003060 homodimer interface [polypeptide binding]; other site 488538003061 oligonucleotide binding site [chemical binding]; other site 488538003062 aspartate aminotransferase; Provisional; Region: PRK05764 488538003063 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 488538003064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538003065 homodimer interface [polypeptide binding]; other site 488538003066 catalytic residue [active] 488538003067 Peptidase family M48; Region: Peptidase_M48; cl12018 488538003068 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 488538003069 binding surface 488538003070 TPR motif; other site 488538003071 TPR repeat; Region: TPR_11; pfam13414 488538003072 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 488538003073 TPR motif; other site 488538003074 binding surface 488538003075 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 488538003076 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 488538003077 catalytic residues [active] 488538003078 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 488538003079 trimer interface [polypeptide binding]; other site 488538003080 active site 488538003081 dimer interface [polypeptide binding]; other site 488538003082 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 488538003083 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 488538003084 carboxyltransferase (CT) interaction site; other site 488538003085 biotinylation site [posttranslational modification]; other site 488538003086 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 488538003087 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488538003088 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538003089 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 488538003090 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538003091 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 488538003092 mce related protein; Region: MCE; pfam02470 488538003093 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 488538003094 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 488538003095 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 488538003096 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 488538003097 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 488538003098 active site 488538003099 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 488538003100 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 488538003101 TSCPD domain; Region: TSCPD; cl14834 488538003102 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 488538003103 homotrimer interaction site [polypeptide binding]; other site 488538003104 putative active site [active] 488538003105 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538003106 Protein of unknown function, DUF482; Region: DUF482; pfam04339 488538003107 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 488538003108 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 488538003109 Walker A motif; other site 488538003110 ATP binding site [chemical binding]; other site 488538003111 Walker B motif; other site 488538003112 arginine finger; other site 488538003113 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 488538003114 Walker A motif; other site 488538003115 ATP binding site [chemical binding]; other site 488538003116 Walker B motif; other site 488538003117 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 488538003118 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 488538003119 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 488538003120 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 488538003121 Sporulation related domain; Region: SPOR; cl10051 488538003122 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 488538003123 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 488538003124 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 488538003125 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 488538003126 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 488538003127 metal binding site [ion binding]; metal-binding site 488538003128 putative dimer interface [polypeptide binding]; other site 488538003129 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 488538003130 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 488538003131 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 488538003132 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 488538003133 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538003134 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 488538003135 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538003136 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538003137 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 488538003138 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538003139 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538003140 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 488538003141 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 488538003142 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 488538003143 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 488538003144 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 488538003145 NAD binding site [chemical binding]; other site 488538003146 homotetramer interface [polypeptide binding]; other site 488538003147 homodimer interface [polypeptide binding]; other site 488538003148 substrate binding site [chemical binding]; other site 488538003149 active site 488538003150 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 488538003151 Tetramer interface [polypeptide binding]; other site 488538003152 active site 488538003153 FMN-binding site [chemical binding]; other site 488538003154 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 488538003155 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 488538003156 RNA binding surface [nucleotide binding]; other site 488538003157 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; cl16911 488538003158 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 488538003159 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 488538003160 TPP-binding site; other site 488538003161 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 488538003162 PYR/PP interface [polypeptide binding]; other site 488538003163 dimer interface [polypeptide binding]; other site 488538003164 TPP binding site [chemical binding]; other site 488538003165 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 488538003166 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 488538003167 substrate binding pocket [chemical binding]; other site 488538003168 chain length determination region; other site 488538003169 substrate-Mg2+ binding site; other site 488538003170 catalytic residues [active] 488538003171 aspartate-rich region 1; other site 488538003172 active site lid residues [active] 488538003173 aspartate-rich region 2; other site 488538003174 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 488538003175 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488538003176 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 488538003177 non-specific DNA binding site [nucleotide binding]; other site 488538003178 salt bridge; other site 488538003179 sequence-specific DNA binding site [nucleotide binding]; other site 488538003180 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 488538003181 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 488538003182 Ferredoxin [Energy production and conversion]; Region: COG1146 488538003183 4Fe-4S binding domain; Region: Fer4; cl02805 488538003184 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 488538003185 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 488538003186 putative metal binding site [ion binding]; other site 488538003187 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 488538003188 RNA binding surface [nucleotide binding]; other site 488538003189 Superfamily II helicase [General function prediction only]; Region: COG1204 488538003190 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 488538003191 nucleotide binding region [chemical binding]; other site 488538003192 ATP-binding site [chemical binding]; other site 488538003193 BUD22; Region: BUD22; pfam09073 488538003194 aconitate hydratase; Validated; Region: PRK09277 488538003195 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 488538003196 substrate binding site [chemical binding]; other site 488538003197 ligand binding site [chemical binding]; other site 488538003198 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 488538003199 substrate binding site [chemical binding]; other site 488538003200 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 488538003201 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538003202 Walker A/P-loop; other site 488538003203 ATP binding site [chemical binding]; other site 488538003204 Q-loop/lid; other site 488538003205 ABC transporter signature motif; other site 488538003206 Walker B; other site 488538003207 D-loop; other site 488538003208 H-loop/switch region; other site 488538003209 CcmB protein; Region: CcmB; cl01016 488538003210 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 488538003211 Heme exporter protein D (CcmD); Region: CcmD; cl11475 488538003212 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 488538003213 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 488538003214 catalytic loop [active] 488538003215 iron binding site [ion binding]; other site 488538003216 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 488538003217 substrate binding pocket [chemical binding]; other site 488538003218 dimer interface [polypeptide binding]; other site 488538003219 inhibitor binding site; inhibition site 488538003220 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 488538003221 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 488538003222 FAD binding site [chemical binding]; other site 488538003223 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538003224 Helix-turn-helix domains; Region: HTH; cl00088 488538003225 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 488538003226 putative dimerization interface [polypeptide binding]; other site 488538003227 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 488538003228 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 488538003229 FAD binding site [chemical binding]; other site 488538003230 Virulence factor; Region: Virulence_fact; pfam13769 488538003231 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 488538003232 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 488538003233 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 488538003234 B12 binding site [chemical binding]; other site 488538003235 cobalt ligand [ion binding]; other site 488538003236 Intracellular septation protein A; Region: IspA; cl01098 488538003237 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 488538003238 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 488538003239 FMN binding site [chemical binding]; other site 488538003240 active site 488538003241 catalytic residues [active] 488538003242 substrate binding site [chemical binding]; other site 488538003243 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 488538003244 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 488538003245 16S rRNA methyltransferase B; Provisional; Region: PRK10901 488538003246 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; cl16911 488538003247 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 488538003248 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 488538003249 active site residue [active] 488538003250 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 488538003251 Chromate transporter; Region: Chromate_transp; pfam02417 488538003252 Chromate transporter; Region: Chromate_transp; pfam02417 488538003253 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 488538003254 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 488538003255 purine monophosphate binding site [chemical binding]; other site 488538003256 dimer interface [polypeptide binding]; other site 488538003257 putative catalytic residues [active] 488538003258 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 488538003259 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 488538003260 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 488538003261 minor groove reading motif; other site 488538003262 helix-hairpin-helix signature motif; other site 488538003263 substrate binding pocket [chemical binding]; other site 488538003264 active site 488538003265 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 488538003266 DNA binding and oxoG recognition site [nucleotide binding] 488538003267 Protein of unknown function (DUF721); Region: DUF721; cl02324 488538003268 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488538003269 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 488538003270 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 488538003271 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 488538003272 Walker A/P-loop; other site 488538003273 ATP binding site [chemical binding]; other site 488538003274 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 488538003275 ABC transporter signature motif; other site 488538003276 Walker B; other site 488538003277 D-loop; other site 488538003278 H-loop/switch region; other site 488538003279 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 488538003280 ATP synthase A chain; Region: ATP-synt_A; cl00413 488538003281 ATP synthase subunit C; Region: ATP-synt_C; cl00466 488538003282 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 488538003283 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 488538003284 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 488538003285 LytB protein; Region: LYTB; cl00507 488538003286 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 488538003287 Homoserine Kinase, type II. Homoserine kinase 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: HomoserineK_II; cd05153 488538003288 Phosphotransferase enzyme family; Region: APH; pfam01636 488538003289 putative active site [active] 488538003290 putative substrate binding site [chemical binding]; other site 488538003291 ATP binding site [chemical binding]; other site 488538003292 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 488538003293 RNA/DNA hybrid binding site [nucleotide binding]; other site 488538003294 active site 488538003295 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 488538003296 catalytic triad [active] 488538003297 dimer interface [polypeptide binding]; other site 488538003298 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 488538003299 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 488538003300 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 488538003301 DsbD alpha interface [polypeptide binding]; other site 488538003302 catalytic residues [active] 488538003303 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 488538003304 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 488538003305 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 488538003306 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 488538003307 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 488538003308 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, cyanobacteria; Region: Thr-synth_2; cd01560 488538003309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538003310 catalytic residue [active] 488538003311 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 488538003312 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 488538003313 Subunit III/VIIa interface [polypeptide binding]; other site 488538003314 Phospholipid binding site [chemical binding]; other site 488538003315 Subunit I/III interface [polypeptide binding]; other site 488538003316 Subunit III/VIb interface [polypeptide binding]; other site 488538003317 Subunit III/VIa interface; other site 488538003318 Subunit III/Vb interface [polypeptide binding]; other site 488538003319 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 488538003320 UbiA prenyltransferase family; Region: UbiA; cl00337 488538003321 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 488538003322 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 488538003323 Subunit I/III interface [polypeptide binding]; other site 488538003324 D-pathway; other site 488538003325 Subunit I/VIIc interface [polypeptide binding]; other site 488538003326 Subunit I/IV interface [polypeptide binding]; other site 488538003327 Subunit I/II interface [polypeptide binding]; other site 488538003328 Low-spin heme (heme a) binding site [chemical binding]; other site 488538003329 Subunit I/VIIa interface [polypeptide binding]; other site 488538003330 Subunit I/VIa interface [polypeptide binding]; other site 488538003331 Dimer interface; other site 488538003332 Putative water exit pathway; other site 488538003333 Binuclear center (heme a3/CuB) [ion binding]; other site 488538003334 K-pathway; other site 488538003335 Subunit I/Vb interface [polypeptide binding]; other site 488538003336 Putative proton exit pathway; other site 488538003337 Subunit I/VIb interface; other site 488538003338 Subunit I/VIc interface [polypeptide binding]; other site 488538003339 Electron transfer pathway; other site 488538003340 Subunit I/VIIIb interface [polypeptide binding]; other site 488538003341 Subunit I/VIIb interface [polypeptide binding]; other site 488538003342 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 488538003343 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 488538003344 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 488538003345 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 488538003346 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 488538003347 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 488538003348 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538003349 putative substrate translocation pore; other site 488538003350 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 488538003351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 488538003352 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 488538003353 UbiA prenyltransferase family; Region: UbiA; cl00337 488538003354 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 488538003355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538003356 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 488538003357 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 488538003358 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 488538003359 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 488538003360 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488538003361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538003362 Walker A/P-loop; other site 488538003363 ATP binding site [chemical binding]; other site 488538003364 Q-loop/lid; other site 488538003365 ABC transporter signature motif; other site 488538003366 Walker B; other site 488538003367 D-loop; other site 488538003368 H-loop/switch region; other site 488538003369 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 488538003370 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 488538003371 putative active site [active] 488538003372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 488538003373 putative acyl-acceptor binding pocket; other site 488538003374 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 488538003375 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 488538003376 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 488538003377 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 488538003378 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 488538003379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 488538003380 putative acyl-acceptor binding pocket; other site 488538003381 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 488538003382 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 488538003383 generic binding surface II; other site 488538003384 generic binding surface I; other site 488538003385 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 488538003386 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 488538003387 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538003388 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 488538003389 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 488538003390 nucleoside/Zn binding site; other site 488538003391 dimer interface [polypeptide binding]; other site 488538003392 catalytic motif [active] 488538003393 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 488538003394 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 488538003395 RNA binding surface [nucleotide binding]; other site 488538003396 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 488538003397 active site 488538003398 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 488538003399 S-adenosylmethionine binding site [chemical binding]; other site 488538003400 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 488538003401 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 488538003402 ATP binding site [chemical binding]; other site 488538003403 Mg2+ binding site [ion binding]; other site 488538003404 G-X-G motif; other site 488538003405 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 488538003406 ATP binding site [chemical binding]; other site 488538003407 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 488538003408 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 488538003409 lipoprotein signal peptidase; Provisional; Region: PRK14787 488538003410 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 488538003411 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 488538003412 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538003413 active site 488538003414 HIGH motif; other site 488538003415 nucleotide binding site [chemical binding]; other site 488538003416 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 488538003417 active site 488538003418 KMSKS motif; other site 488538003419 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 488538003420 tRNA binding surface [nucleotide binding]; other site 488538003421 anticodon binding site; other site 488538003422 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 488538003423 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 488538003424 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 488538003425 active site 488538003426 Riboflavin kinase; Region: Flavokinase; cl03312 488538003427 Mechanosensitive ion channel; Region: MS_channel; pfam00924 488538003428 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 488538003429 putative active site pocket [active] 488538003430 dimerization interface [polypeptide binding]; other site 488538003431 putative catalytic residue [active] 488538003432 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 488538003433 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 488538003434 diiron binding motif [ion binding]; other site 488538003435 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 488538003436 active site 488538003437 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538003438 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 488538003439 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538003440 active site 488538003441 HIGH motif; other site 488538003442 nucleotide binding site [chemical binding]; other site 488538003443 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538003444 active site 488538003445 KMSKS motif; other site 488538003446 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 488538003447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538003448 putative substrate translocation pore; other site 488538003449 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 488538003450 metal binding site 2 [ion binding]; metal-binding site 488538003451 putative DNA binding helix; other site 488538003452 metal binding site 1 [ion binding]; metal-binding site 488538003453 dimer interface [polypeptide binding]; other site 488538003454 structural Zn2+ binding site [ion binding]; other site 488538003455 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 488538003456 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 488538003457 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 488538003458 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 488538003459 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 488538003460 Membrane transport protein; Region: Mem_trans; cl09117 488538003461 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 488538003462 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 488538003463 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 488538003464 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 488538003465 Thiamine pyrophosphokinase; Region: TPK; cd07995 488538003466 active site 488538003467 dimerization interface [polypeptide binding]; other site 488538003468 thiamine binding site [chemical binding]; other site 488538003469 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 488538003470 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 488538003471 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 488538003472 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 488538003473 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 488538003474 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 488538003475 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 488538003476 Walker A/P-loop; other site 488538003477 ATP binding site [chemical binding]; other site 488538003478 Q-loop/lid; other site 488538003479 ABC transporter signature motif; other site 488538003480 Walker B; other site 488538003481 D-loop; other site 488538003482 H-loop/switch region; other site 488538003483 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 488538003484 Cupin domain; Region: Cupin_2; cl09118 488538003485 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 488538003486 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538003487 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 488538003488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538003489 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 488538003490 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 488538003491 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 488538003492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538003493 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 488538003494 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 488538003495 homodimer interface [polypeptide binding]; other site 488538003496 substrate-cofactor binding pocket; other site 488538003497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538003498 catalytic residue [active] 488538003499 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538003500 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538003501 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538003502 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 488538003503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538003504 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 488538003505 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 488538003506 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 488538003507 substrate binding site [chemical binding]; other site 488538003508 oxyanion hole (OAH) forming residues; other site 488538003509 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 488538003510 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 488538003511 active site 488538003512 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 488538003513 LysE type translocator; Region: LysE; cl00565 488538003514 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 488538003515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538003516 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538003517 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538003518 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538003519 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 488538003520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538003521 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538003522 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538003523 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 488538003524 non-specific DNA binding site [nucleotide binding]; other site 488538003525 salt bridge; other site 488538003526 sequence-specific DNA binding site [nucleotide binding]; other site 488538003527 Cupin domain; Region: Cupin_2; cl09118 488538003528 Protein of unknown function (DUF983); Region: DUF983; cl02211 488538003529 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 488538003530 catalytic triad [active] 488538003531 putative active site [active] 488538003532 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 488538003533 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538003534 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 488538003535 active site 488538003536 dimer interface [polypeptide binding]; other site 488538003537 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 488538003538 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 488538003539 Walker A/P-loop; other site 488538003540 ATP binding site [chemical binding]; other site 488538003541 Q-loop/lid; other site 488538003542 ABC transporter signature motif; other site 488538003543 Walker B; other site 488538003544 D-loop; other site 488538003545 H-loop/switch region; other site 488538003546 TOBE domain; Region: TOBE_2; cl01440 488538003547 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 488538003548 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 488538003549 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 488538003550 galactokinase; Provisional; Region: PRK05101 488538003551 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 488538003552 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 488538003553 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 488538003554 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 488538003555 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 488538003556 nucleotide binding site/active site [active] 488538003557 HIT family signature motif; other site 488538003558 catalytic residue [active] 488538003559 alpha-galactosidase; Provisional; Region: PRK15076 488538003560 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 488538003561 NAD binding site [chemical binding]; other site 488538003562 sugar binding site [chemical binding]; other site 488538003563 divalent metal binding site [ion binding]; other site 488538003564 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 488538003565 dimer interface [polypeptide binding]; other site 488538003566 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488538003567 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 488538003568 dimer interface [polypeptide binding]; other site 488538003569 conserved gate region; other site 488538003570 putative PBP binding loops; other site 488538003571 ABC-ATPase subunit interface; other site 488538003572 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 488538003573 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 488538003574 dimer interface [polypeptide binding]; other site 488538003575 conserved gate region; other site 488538003576 putative PBP binding loops; other site 488538003577 ABC-ATPase subunit interface; other site 488538003578 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488538003579 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 488538003580 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 488538003581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488538003582 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 488538003583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538003584 active site 488538003585 phosphorylation site [posttranslational modification] 488538003586 intermolecular recognition site; other site 488538003587 dimerization interface [polypeptide binding]; other site 488538003588 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 488538003589 DNA binding site [nucleotide binding] 488538003590 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 488538003591 PhoU domain; Region: PhoU; pfam01895 488538003592 PhoU domain; Region: PhoU; pfam01895 488538003593 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 488538003594 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 488538003595 Walker A/P-loop; other site 488538003596 ATP binding site [chemical binding]; other site 488538003597 Q-loop/lid; other site 488538003598 ABC transporter signature motif; other site 488538003599 Walker B; other site 488538003600 D-loop; other site 488538003601 H-loop/switch region; other site 488538003602 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 488538003603 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 488538003604 dimer interface [polypeptide binding]; other site 488538003605 conserved gate region; other site 488538003606 putative PBP binding loops; other site 488538003607 ABC-ATPase subunit interface; other site 488538003608 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 488538003609 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 488538003610 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 488538003611 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 488538003612 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 488538003613 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 488538003614 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 488538003615 dimer interface [polypeptide binding]; other site 488538003616 phosphorylation site [posttranslational modification] 488538003617 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 488538003618 ATP binding site [chemical binding]; other site 488538003619 Mg2+ binding site [ion binding]; other site 488538003620 G-X-G motif; other site 488538003621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 488538003622 NMT1-like family; Region: NMT1_2; cl15260 488538003623 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 488538003624 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 488538003625 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 488538003626 AMP-binding enzyme; Region: AMP-binding; cl15778 488538003627 AMP-binding enzyme; Region: AMP-binding; cl15778 488538003628 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 488538003629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538003630 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 488538003631 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 488538003632 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 488538003633 homodimer interface [polypeptide binding]; other site 488538003634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538003635 catalytic residue [active] 488538003636 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488538003637 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 488538003638 non-specific DNA binding site [nucleotide binding]; other site 488538003639 salt bridge; other site 488538003640 sequence-specific DNA binding site [nucleotide binding]; other site 488538003641 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 488538003642 Domain of unknown function (DUF955); Region: DUF955; cl01076 488538003643 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 488538003644 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 488538003645 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538003646 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 488538003647 dimer interface [polypeptide binding]; other site 488538003648 FMN binding site [chemical binding]; other site 488538003649 NADPH bind site [chemical binding]; other site 488538003650 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 488538003651 extended (e) SDRs; Region: SDR_e; cd08946 488538003652 NAD(P) binding site [chemical binding]; other site 488538003653 active site 488538003654 substrate binding site [chemical binding]; other site 488538003655 GTP-binding protein LepA; Provisional; Region: PRK05433 488538003656 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 488538003657 G1 box; other site 488538003658 putative GEF interaction site [polypeptide binding]; other site 488538003659 GTP/Mg2+ binding site [chemical binding]; other site 488538003660 Switch I region; other site 488538003661 G2 box; other site 488538003662 G3 box; other site 488538003663 Switch II region; other site 488538003664 G4 box; other site 488538003665 G5 box; other site 488538003666 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 488538003667 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 488538003668 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 488538003669 2-isopropylmalate synthase; Validated; Region: PRK03739 488538003670 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 488538003671 active site 488538003672 catalytic residues [active] 488538003673 metal binding site [ion binding]; metal-binding site 488538003674 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 488538003675 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 488538003676 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 488538003677 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 488538003678 Cadherin repeat-like domain; Region: CA_like; cl15786 488538003679 Cadherin repeat-like domain; Region: CA_like; cl15786 488538003680 potential protein location (hypothetical protein) that overlaps protein (adenylate/guanylate cyclase) 488538003681 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 488538003682 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 488538003683 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 488538003684 putative tRNA-binding site [nucleotide binding]; other site 488538003685 B3/4 domain; Region: B3_4; cl11458 488538003686 tRNA synthetase B5 domain; Region: B5; cl08394 488538003687 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 488538003688 motif 1; other site 488538003689 dimer interface [polypeptide binding]; other site 488538003690 motif 3; other site 488538003691 motif 2; other site 488538003692 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 488538003693 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 488538003694 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 488538003695 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 488538003696 dimer interface [polypeptide binding]; other site 488538003697 motif 1; other site 488538003698 active site 488538003699 motif 2; other site 488538003700 motif 3; other site 488538003701 ribosomal protein L20; Region: rpl20; CHL00068 488538003702 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 488538003703 23S rRNA binding site [nucleotide binding]; other site 488538003704 L21 binding site [polypeptide binding]; other site 488538003705 L13 binding site [polypeptide binding]; other site 488538003706 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 488538003707 LabA_like proteins; Region: LabA_like; cd06167 488538003708 putative metal binding site [ion binding]; other site 488538003709 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 488538003710 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 488538003711 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 488538003712 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 488538003713 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 488538003714 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 488538003715 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 488538003716 active site 488538003717 dimer interface [polypeptide binding]; other site 488538003718 motif 1; other site 488538003719 motif 2; other site 488538003720 motif 3; other site 488538003721 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 488538003722 anticodon binding site; other site 488538003723 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538003724 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 488538003725 putative ADP-binding pocket [chemical binding]; other site 488538003726 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488538003727 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538003728 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 488538003729 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538003730 C-terminal domain interface [polypeptide binding]; other site 488538003731 GSH binding site (G-site) [chemical binding]; other site 488538003732 dimer interface [polypeptide binding]; other site 488538003733 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 488538003734 N-terminal domain interface [polypeptide binding]; other site 488538003735 dimer interface [polypeptide binding]; other site 488538003736 substrate binding pocket (H-site) [chemical binding]; other site 488538003737 Predicted acetyltransferase [General function prediction only]; Region: COG3153 488538003738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538003739 Coenzyme A binding pocket [chemical binding]; other site 488538003740 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 488538003741 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 488538003742 active site 488538003743 dimer interface [polypeptide binding]; other site 488538003744 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 488538003745 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 488538003746 active site 488538003747 FMN binding site [chemical binding]; other site 488538003748 substrate binding site [chemical binding]; other site 488538003749 3Fe-4S cluster binding site [ion binding]; other site 488538003750 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 488538003751 domain interface; other site 488538003752 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 488538003753 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538003754 Bacitracin resistance protein BacA; Region: BacA; cl00858 488538003755 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 488538003756 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 488538003757 putative NAD(P) binding site [chemical binding]; other site 488538003758 active site 488538003759 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 488538003760 catalytic site [active] 488538003761 putative active site [active] 488538003762 putative substrate binding site [chemical binding]; other site 488538003763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 488538003764 OstA-like protein; Region: OstA; cl00844 488538003765 OstA-like protein; Region: OstA; cl00844 488538003766 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 488538003767 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 488538003768 Walker A/P-loop; other site 488538003769 ATP binding site [chemical binding]; other site 488538003770 Q-loop/lid; other site 488538003771 ABC transporter signature motif; other site 488538003772 Walker B; other site 488538003773 D-loop; other site 488538003774 H-loop/switch region; other site 488538003775 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 488538003776 active site 488538003777 phosphorylation site [posttranslational modification] 488538003778 TIGR02300 family protein; Region: FYDLN_acid 488538003779 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 488538003780 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 488538003781 hinge; other site 488538003782 active site 488538003783 cytidylate kinase; Provisional; Region: cmk; PRK00023 488538003784 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 488538003785 CMP-binding site; other site 488538003786 The sites determining sugar specificity; other site 488538003787 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 488538003788 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 488538003789 RNA binding site [nucleotide binding]; other site 488538003790 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 488538003791 RNA binding site [nucleotide binding]; other site 488538003792 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 488538003793 RNA binding site [nucleotide binding]; other site 488538003794 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 488538003795 RNA binding site [nucleotide binding]; other site 488538003796 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 488538003797 RNA binding site [nucleotide binding]; other site 488538003798 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 488538003799 RNA binding site [nucleotide binding]; other site 488538003800 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 488538003801 IHF dimer interface [polypeptide binding]; other site 488538003802 IHF - DNA interface [nucleotide binding]; other site 488538003803 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 488538003804 active site 488538003805 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 488538003806 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 488538003807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538003808 catalytic residue [active] 488538003809 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 488538003810 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 488538003811 substrate binding site [chemical binding]; other site 488538003812 active site 488538003813 catalytic residues [active] 488538003814 heterodimer interface [polypeptide binding]; other site 488538003815 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 488538003816 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 488538003817 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 488538003818 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488538003819 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 488538003820 catalytic residues [active] 488538003821 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 488538003822 Family description; Region: UvrD_C_2; cl15862 488538003823 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 488538003824 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 488538003825 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 488538003826 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 488538003827 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 488538003828 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 488538003829 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 488538003830 oligomerization interface [polypeptide binding]; other site 488538003831 active site 488538003832 NAD+ binding site [chemical binding]; other site 488538003833 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 488538003834 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 488538003835 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 488538003836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488538003837 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 488538003838 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 488538003839 dimer interface [polypeptide binding]; other site 488538003840 phosphorylation site [posttranslational modification] 488538003841 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 488538003842 ATP binding site [chemical binding]; other site 488538003843 Mg2+ binding site [ion binding]; other site 488538003844 G-X-G motif; other site 488538003845 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488538003846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538003847 active site 488538003848 phosphorylation site [posttranslational modification] 488538003849 intermolecular recognition site; other site 488538003850 dimerization interface [polypeptide binding]; other site 488538003851 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 488538003852 DNA binding site [nucleotide binding] 488538003853 DNA polymerase I; Provisional; Region: PRK05755 488538003854 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 488538003855 active site 488538003856 metal binding site 1 [ion binding]; metal-binding site 488538003857 putative 5' ssDNA interaction site; other site 488538003858 metal binding site 3; metal-binding site 488538003859 metal binding site 2 [ion binding]; metal-binding site 488538003860 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 488538003861 putative DNA binding site [nucleotide binding]; other site 488538003862 putative metal binding site [ion binding]; other site 488538003863 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 488538003864 active site 488538003865 catalytic site [active] 488538003866 substrate binding site [chemical binding]; other site 488538003867 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 488538003868 active site 488538003869 DNA binding site [nucleotide binding] 488538003870 catalytic site [active] 488538003871 Zinc-finger domain; Region: zf-CHCC; cl01821 488538003872 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 488538003873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538003874 Walker A/P-loop; other site 488538003875 ATP binding site [chemical binding]; other site 488538003876 Q-loop/lid; other site 488538003877 ABC transporter signature motif; other site 488538003878 Walker B; other site 488538003879 D-loop; other site 488538003880 H-loop/switch region; other site 488538003881 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 488538003882 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 488538003883 active site 488538003884 catalytic residues [active] 488538003885 DNA binding site [nucleotide binding] 488538003886 Int/Topo IB signature motif; other site 488538003887 Protein of unknown function (DUF461); Region: DUF461; cl01071 488538003888 Predicted acetyltransferase [General function prediction only]; Region: COG3153 488538003889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538003890 Coenzyme A binding pocket [chemical binding]; other site 488538003891 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 488538003892 N-formylglutamate amidohydrolase; Region: FGase; cl01522 488538003893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538003894 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 488538003895 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 488538003896 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; cl16911 488538003897 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 488538003898 multiple promoter invertase; Provisional; Region: mpi; PRK13413 488538003899 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 488538003900 catalytic residues [active] 488538003901 catalytic nucleophile [active] 488538003902 Presynaptic Site I dimer interface [polypeptide binding]; other site 488538003903 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 488538003904 Synaptic Flat tetramer interface [polypeptide binding]; other site 488538003905 Synaptic Site I dimer interface [polypeptide binding]; other site 488538003906 DNA binding site [nucleotide binding] 488538003907 Helix-turn-helix domains; Region: HTH; cl00088 488538003908 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 488538003909 Sel1 repeat; Region: Sel1; cl02723 488538003910 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 488538003911 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 488538003912 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 488538003913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538003914 DNA helicase IV; Provisional; Region: helD; PRK11054 488538003915 Family description; Region: UvrD_C_2; cl15862 488538003916 DNA topoisomerase I; Validated; Region: PRK06599 488538003917 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 488538003918 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 488538003919 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 488538003920 active site 488538003921 DNA binding site [nucleotide binding] 488538003922 Int/Topo IB signature motif; other site 488538003923 AIPR protein; Region: AIPR; pfam10592 488538003924 AIPR protein; Region: AIPR; pfam10592 488538003925 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 488538003926 Z1 domain; Region: Z1; pfam10593 488538003927 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 488538003928 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; cl16911 488538003929 cofactor binding site; other site 488538003930 DNA binding site [nucleotide binding] 488538003931 substrate interaction site [chemical binding]; other site 488538003932 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; cl16911 488538003933 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 488538003934 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538003935 putative substrate translocation pore; other site 488538003936 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 488538003937 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538003938 TPR repeat; Region: TPR_11; pfam13414 488538003939 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 488538003940 binding surface 488538003941 TPR motif; other site 488538003942 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 488538003943 binding surface 488538003944 TPR motif; other site 488538003945 TPR repeat; Region: TPR_11; pfam13414 488538003946 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 488538003947 binding surface 488538003948 TPR motif; other site 488538003949 TPR repeat; Region: TPR_11; pfam13414 488538003950 TPR repeat; Region: TPR_11; pfam13414 488538003951 TPR repeat; Region: TPR_11; pfam13414 488538003952 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 488538003953 binding surface 488538003954 TPR motif; other site 488538003955 TPR repeat; Region: TPR_11; pfam13414 488538003956 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 488538003957 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 488538003958 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 488538003959 binding surface 488538003960 TPR motif; other site 488538003961 TPR repeat; Region: TPR_11; pfam13414 488538003962 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 488538003963 binding surface 488538003964 TPR motif; other site 488538003965 TPR repeat; Region: TPR_11; pfam13414 488538003966 TPR repeat; Region: TPR_11; pfam13414 488538003967 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 488538003968 binding surface 488538003969 TPR motif; other site 488538003970 TPR repeat; Region: TPR_11; pfam13414 488538003971 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 488538003972 binding surface 488538003973 TPR motif; other site 488538003974 TPR repeat; Region: TPR_11; pfam13414 488538003975 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 488538003976 binding surface 488538003977 TPR motif; other site 488538003978 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 488538003979 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 488538003980 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 488538003981 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 488538003982 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 488538003983 active site 488538003984 Int/Topo IB signature motif; other site 488538003985 DNA binding site [nucleotide binding] 488538003986 Domain of unknown function (DUF329); Region: DUF329; cl01144 488538003987 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 488538003988 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 488538003989 Maf-like protein; Region: Maf; pfam02545 488538003990 active site 488538003991 dimer interface [polypeptide binding]; other site 488538003992 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 488538003993 rRNA binding site [nucleotide binding]; other site 488538003994 predicted 30S ribosome binding site; other site 488538003995 Low molecular weight phosphatase family; Region: LMWPc; cl00105 488538003996 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 488538003997 active site 488538003998 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 488538003999 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 488538004000 histidinol dehydrogenase; Region: hisD; TIGR00069 488538004001 NAD binding site [chemical binding]; other site 488538004002 dimerization interface [polypeptide binding]; other site 488538004003 product binding site; other site 488538004004 substrate binding site [chemical binding]; other site 488538004005 zinc binding site [ion binding]; other site 488538004006 catalytic residues [active] 488538004007 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 488538004008 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 488538004009 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 488538004010 hinge; other site 488538004011 active site 488538004012 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 488538004013 mercuric reductase; Validated; Region: PRK06370 488538004014 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538004015 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488538004016 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 488538004017 FOG: CBS domain [General function prediction only]; Region: COG0517 488538004018 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 488538004019 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 488538004020 Walker A motif; other site 488538004021 ATP binding site [chemical binding]; other site 488538004022 Walker B motif; other site 488538004023 arginine finger; other site 488538004024 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 488538004025 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 488538004026 Walker A motif; other site 488538004027 ATP binding site [chemical binding]; other site 488538004028 Walker B motif; other site 488538004029 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 488538004030 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538004031 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 488538004032 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 488538004033 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 488538004034 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538004035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004036 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 488538004037 NAD(P) binding site [chemical binding]; other site 488538004038 active site 488538004039 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 488538004040 AIR carboxylase; Region: AIRC; cl00310 488538004041 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 488538004042 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538004043 Homoserine O-succinyltransferase; Region: HTS; pfam04204 488538004044 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 488538004045 proposed active site lysine [active] 488538004046 conserved cys residue [active] 488538004047 Helix-turn-helix domains; Region: HTH; cl00088 488538004048 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 488538004049 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 488538004050 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 488538004051 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 488538004052 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 488538004053 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 488538004054 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 488538004055 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538004056 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 488538004057 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 488538004058 active site 488538004059 Zn binding site [ion binding]; other site 488538004060 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 488538004061 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538004062 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 488538004063 lipoyl attachment site [posttranslational modification]; other site 488538004064 glycine dehydrogenase; Provisional; Region: PRK05367 488538004065 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 488538004066 tetramer interface [polypeptide binding]; other site 488538004067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538004068 catalytic residue [active] 488538004069 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 488538004070 tetramer interface [polypeptide binding]; other site 488538004071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538004072 catalytic residue [active] 488538004073 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 488538004074 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 488538004075 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 488538004076 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 488538004077 active site 488538004078 oligomerization interface [polypeptide binding]; other site 488538004079 metal binding site [ion binding]; metal-binding site 488538004080 pantoate--beta-alanine ligase; Region: panC; TIGR00018 488538004081 Pantoate-beta-alanine ligase; Region: PanC; cd00560 488538004082 active site 488538004083 ATP-binding site [chemical binding]; other site 488538004084 pantoate-binding site; other site 488538004085 HXXH motif; other site 488538004086 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538004087 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 488538004088 catalytic triad [active] 488538004089 putative active site [active] 488538004090 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 488538004091 active site 488538004092 catalytic residues [active] 488538004093 DNA binding site [nucleotide binding] 488538004094 Int/Topo IB signature motif; other site 488538004095 ATP synthase A chain; Region: ATP-synt_A; cl00413 488538004096 rod shape-determining protein MreB; Provisional; Region: PRK13930 488538004097 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 488538004098 ATP binding site [chemical binding]; other site 488538004099 gelsolin binding site; other site 488538004100 profilin binding site; other site 488538004101 tellurite resistance protein terB; Region: terB; cd07176 488538004102 putative metal binding site [ion binding]; other site 488538004103 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; cl16911 488538004104 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 488538004105 cofactor binding site; other site 488538004106 DNA binding site [nucleotide binding] 488538004107 substrate interaction site [chemical binding]; other site 488538004108 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 488538004109 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 488538004110 S-adenosylmethionine binding site [chemical binding]; other site 488538004111 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 488538004112 active site 488538004113 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 488538004114 nucleotide binding site/active site [active] 488538004115 HIT family signature motif; other site 488538004116 catalytic residue [active] 488538004117 helicase 45; Provisional; Region: PTZ00424 488538004118 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 488538004119 ATP binding site [chemical binding]; other site 488538004120 Mg++ binding site [ion binding]; other site 488538004121 motif III; other site 488538004122 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 488538004123 nucleotide binding region [chemical binding]; other site 488538004124 ATP-binding site [chemical binding]; other site 488538004125 acyl-CoA synthetase; Validated; Region: PRK08162 488538004126 AMP-binding enzyme; Region: AMP-binding; cl15778 488538004127 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538004128 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 488538004129 CoA-transferase family III; Region: CoA_transf_3; pfam02515 488538004130 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 488538004131 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538004132 PYR/PP interface [polypeptide binding]; other site 488538004133 dimer interface [polypeptide binding]; other site 488538004134 TPP binding site [chemical binding]; other site 488538004135 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538004136 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 488538004137 TPP-binding site [chemical binding]; other site 488538004138 DctM-like transporters; Region: DctM; pfam06808 488538004139 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538004140 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538004141 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 488538004142 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538004143 xanthine permease; Region: pbuX; TIGR03173 488538004144 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 488538004145 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 488538004146 active site 488538004147 putative substrate binding pocket [chemical binding]; other site 488538004148 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 488538004149 allantoicase; Provisional; Region: PRK13257 488538004150 Allantoicase repeat; Region: Allantoicase; pfam03561 488538004151 Allantoicase repeat; Region: Allantoicase; pfam03561 488538004152 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 488538004153 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 488538004154 active site 488538004155 catalytic site [active] 488538004156 tetramer interface [polypeptide binding]; other site 488538004157 Predicted membrane protein [Function unknown]; Region: COG3748 488538004158 Protein of unknown function (DUF989); Region: DUF989; pfam06181 488538004159 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 488538004160 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 488538004161 XdhC Rossmann domain; Region: XdhC_C; pfam13478 488538004162 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 488538004163 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 488538004164 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 488538004165 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 488538004166 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 488538004167 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 488538004168 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 488538004169 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 488538004170 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 488538004171 active site 488538004172 homotetramer interface [polypeptide binding]; other site 488538004173 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 488538004174 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 488538004175 FAD binding domain; Region: FAD_binding_4; pfam01565 488538004176 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 488538004177 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538004178 tetrameric interface [polypeptide binding]; other site 488538004179 NAD binding site [chemical binding]; other site 488538004180 catalytic residues [active] 488538004181 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 488538004182 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 488538004183 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 488538004184 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 488538004185 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 488538004186 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 488538004187 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 488538004188 Walker A/P-loop; other site 488538004189 ATP binding site [chemical binding]; other site 488538004190 Q-loop/lid; other site 488538004191 ABC transporter signature motif; other site 488538004192 Walker B; other site 488538004193 D-loop; other site 488538004194 H-loop/switch region; other site 488538004195 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 488538004196 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 488538004197 dimer interface [polypeptide binding]; other site 488538004198 conserved gate region; other site 488538004199 putative PBP binding loops; other site 488538004200 ABC-ATPase subunit interface; other site 488538004201 NMT1-like family; Region: NMT1_2; cl15260 488538004202 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 488538004203 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 488538004204 intersubunit interface [polypeptide binding]; other site 488538004205 active site 488538004206 Zn2+ binding site [ion binding]; other site 488538004207 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538004208 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 488538004209 NAD(P) binding site [chemical binding]; other site 488538004210 catalytic residues [active] 488538004211 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 488538004212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538004213 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 488538004214 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 488538004215 putative DNA binding site [nucleotide binding]; other site 488538004216 putative Zn2+ binding site [ion binding]; other site 488538004217 AsnC family; Region: AsnC_trans_reg; pfam01037 488538004218 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 488538004219 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 488538004220 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 488538004221 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 488538004222 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 488538004223 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 488538004224 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 488538004225 conserved cys residue [active] 488538004226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488538004227 Fe-S metabolism associated domain; Region: SufE; cl00951 488538004228 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 488538004229 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 488538004230 active site 488538004231 substrate binding site [chemical binding]; other site 488538004232 coenzyme B12 binding site [chemical binding]; other site 488538004233 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 488538004234 B12 binding site [chemical binding]; other site 488538004235 cobalt ligand [ion binding]; other site 488538004236 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 488538004237 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 488538004238 Helix-turn-helix domains; Region: HTH; cl00088 488538004239 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 488538004240 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 488538004241 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 488538004242 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 488538004243 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 488538004244 active site 488538004245 dimer interface [polypeptide binding]; other site 488538004246 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 488538004247 DNA-binding site [nucleotide binding]; DNA binding site 488538004248 RNA-binding motif; other site 488538004249 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 488538004250 DNA-binding site [nucleotide binding]; DNA binding site 488538004251 RNA-binding motif; other site 488538004252 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 488538004253 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 488538004254 putative substrate translocation pore; other site 488538004255 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 488538004256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004257 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538004258 Peptidase family M23; Region: Peptidase_M23; pfam01551 488538004259 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 488538004260 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 488538004261 putative NAD(P) binding site [chemical binding]; other site 488538004262 hypothetical protein; Provisional; Region: PRK08185 488538004263 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 488538004264 intersubunit interface [polypeptide binding]; other site 488538004265 active site 488538004266 zinc binding site [ion binding]; other site 488538004267 Na+ binding site [ion binding]; other site 488538004268 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 488538004269 AMP binding site [chemical binding]; other site 488538004270 metal binding site [ion binding]; metal-binding site 488538004271 active site 488538004272 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 488538004273 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 488538004274 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 488538004275 FeS/SAM binding site; other site 488538004276 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 488538004277 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 488538004278 active site 488538004279 catalytic triad [active] 488538004280 oxyanion hole [active] 488538004281 switch loop; other site 488538004282 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 488538004283 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 488538004284 Walker A/P-loop; other site 488538004285 ATP binding site [chemical binding]; other site 488538004286 Q-loop/lid; other site 488538004287 ABC transporter signature motif; other site 488538004288 Walker B; other site 488538004289 D-loop; other site 488538004290 H-loop/switch region; other site 488538004291 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 488538004292 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 488538004293 FtsX-like permease family; Region: FtsX; cl15850 488538004294 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 488538004295 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 488538004296 ANP binding site [chemical binding]; other site 488538004297 Substrate Binding Site II [chemical binding]; other site 488538004298 Substrate Binding Site I [chemical binding]; other site 488538004299 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 488538004300 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 488538004301 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 488538004302 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 488538004303 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 488538004304 trimer interface [polypeptide binding]; other site 488538004305 putative metal binding site [ion binding]; other site 488538004306 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538004307 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 488538004308 tetramerization interface [polypeptide binding]; other site 488538004309 NAD(P) binding site [chemical binding]; other site 488538004310 catalytic residues [active] 488538004311 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 488538004312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004313 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538004314 active site 488538004315 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488538004316 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 488538004317 active site 488538004318 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 488538004319 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 488538004320 NADP binding site [chemical binding]; other site 488538004321 dimer interface [polypeptide binding]; other site 488538004322 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 488538004323 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 488538004324 cyclase homology domain; Region: CHD; cd07302 488538004325 nucleotidyl binding site; other site 488538004326 metal binding site [ion binding]; metal-binding site 488538004327 dimer interface [polypeptide binding]; other site 488538004328 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 488538004329 PAS domain; Region: PAS_9; pfam13426 488538004330 putative active site [active] 488538004331 heme pocket [chemical binding]; other site 488538004332 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 488538004333 TPR repeat; Region: TPR_11; pfam13414 488538004334 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 488538004335 TPR motif; other site 488538004336 binding surface 488538004337 Tetratricopeptide repeat; Region: TPR_16; pfam13432 488538004338 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 488538004339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004340 pyruvate kinase; Provisional; Region: PRK06247 488538004341 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 488538004342 domain interfaces; other site 488538004343 active site 488538004344 NMT1-like family; Region: NMT1_2; cl15260 488538004345 NMT1/THI5 like; Region: NMT1; pfam09084 488538004346 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 488538004347 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 488538004348 Walker A/P-loop; other site 488538004349 ATP binding site [chemical binding]; other site 488538004350 Q-loop/lid; other site 488538004351 ABC transporter signature motif; other site 488538004352 Walker B; other site 488538004353 D-loop; other site 488538004354 H-loop/switch region; other site 488538004355 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 488538004356 dimer interface [polypeptide binding]; other site 488538004357 conserved gate region; other site 488538004358 putative PBP binding loops; other site 488538004359 ABC-ATPase subunit interface; other site 488538004360 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 488538004361 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 488538004362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538004363 catalytic residue [active] 488538004364 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 488538004365 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488538004366 substrate binding pocket [chemical binding]; other site 488538004367 membrane-bound complex binding site; other site 488538004368 hinge residues; other site 488538004369 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 488538004370 dimer interface [polypeptide binding]; other site 488538004371 conserved gate region; other site 488538004372 putative PBP binding loops; other site 488538004373 ABC-ATPase subunit interface; other site 488538004374 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488538004375 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 488538004376 dimer interface [polypeptide binding]; other site 488538004377 conserved gate region; other site 488538004378 putative PBP binding loops; other site 488538004379 ABC-ATPase subunit interface; other site 488538004380 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488538004381 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 488538004382 Walker A/P-loop; other site 488538004383 ATP binding site [chemical binding]; other site 488538004384 Q-loop/lid; other site 488538004385 ABC transporter signature motif; other site 488538004386 Walker B; other site 488538004387 D-loop; other site 488538004388 H-loop/switch region; other site 488538004389 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538004390 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 488538004391 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 488538004392 molybdopterin cofactor binding site [chemical binding]; other site 488538004393 substrate binding site [chemical binding]; other site 488538004394 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 488538004395 molybdopterin cofactor binding site; other site 488538004396 putative inner membrane protein; Provisional; Region: PRK11099 488538004397 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 488538004398 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 488538004399 active site residue [active] 488538004400 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 488538004401 active site residue [active] 488538004402 EamA-like transporter family; Region: EamA; cl01037 488538004403 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538004404 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 488538004405 ArsC family; Region: ArsC; pfam03960 488538004406 catalytic residues [active] 488538004407 short chain dehydrogenase; Provisional; Region: PRK06198 488538004408 classical (c) SDRs; Region: SDR_c; cd05233 488538004409 NAD(P) binding site [chemical binding]; other site 488538004410 active site 488538004411 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 488538004412 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_5; cd06338 488538004413 putative ligand binding site [chemical binding]; other site 488538004414 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 488538004415 TM-ABC transporter signature motif; other site 488538004416 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 488538004417 TM-ABC transporter signature motif; other site 488538004418 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538004419 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 488538004420 Walker A/P-loop; other site 488538004421 ATP binding site [chemical binding]; other site 488538004422 Q-loop/lid; other site 488538004423 ABC transporter signature motif; other site 488538004424 Walker B; other site 488538004425 D-loop; other site 488538004426 H-loop/switch region; other site 488538004427 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488538004428 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 488538004429 Walker A/P-loop; other site 488538004430 ATP binding site [chemical binding]; other site 488538004431 Q-loop/lid; other site 488538004432 ABC transporter signature motif; other site 488538004433 Walker B; other site 488538004434 D-loop; other site 488538004435 H-loop/switch region; other site 488538004436 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 488538004437 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 488538004438 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538004439 catalytic residue [active] 488538004440 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 488538004441 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538004442 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488538004443 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 488538004444 non-specific DNA binding site [nucleotide binding]; other site 488538004445 salt bridge; other site 488538004446 sequence-specific DNA binding site [nucleotide binding]; other site 488538004447 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 488538004448 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 488538004449 active site 488538004450 DNA binding site [nucleotide binding] 488538004451 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 488538004452 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 488538004453 Catalytic site [active] 488538004454 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 488538004455 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 488538004456 HemY protein N-terminus; Region: HemY_N; pfam07219 488538004457 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 488538004458 active site 488538004459 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 488538004460 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; cl03189 488538004461 domain interfaces; other site 488538004462 active site 488538004463 UGMP family protein; Validated; Region: PRK09604 488538004464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004465 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 488538004466 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 488538004467 EVE domain; Region: EVE; cl00728 488538004468 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 488538004469 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 488538004470 active site 488538004471 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 488538004472 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 488538004473 MatE; Region: MatE; cl10513 488538004474 MatE; Region: MatE; cl10513 488538004475 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 488538004476 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 488538004477 interface (dimer of trimers) [polypeptide binding]; other site 488538004478 Substrate-binding/catalytic site; other site 488538004479 Zn-binding sites [ion binding]; other site 488538004480 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 488538004481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004482 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 488538004483 active site 488538004484 Cytochrome c; Region: Cytochrom_C; cl11414 488538004485 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 488538004486 Ligand binding site; other site 488538004487 oligomer interface; other site 488538004488 prephenate dehydratase; Provisional; Region: PRK11899 488538004489 Prephenate dehydratase; Region: PDT; pfam00800 488538004490 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 488538004491 putative L-Phe binding site [chemical binding]; other site 488538004492 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 488538004493 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 488538004494 Walker A motif; other site 488538004495 ATP binding site [chemical binding]; other site 488538004496 Walker B motif; other site 488538004497 arginine finger; other site 488538004498 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 488538004499 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 488538004500 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 488538004501 recombination protein RecR; Reviewed; Region: recR; PRK00076 488538004502 RecR protein; Region: RecR; pfam02132 488538004503 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 488538004504 putative active site [active] 488538004505 putative metal-binding site [ion binding]; other site 488538004506 tetramer interface [polypeptide binding]; other site 488538004507 RmuC family; Region: RmuC; pfam02646 488538004508 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 488538004509 active site 488538004510 catalytic residues [active] 488538004511 metal binding site [ion binding]; metal-binding site 488538004512 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 488538004513 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 488538004514 putative active site [active] 488538004515 substrate binding site [chemical binding]; other site 488538004516 putative cosubstrate binding site; other site 488538004517 catalytic site [active] 488538004518 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 488538004519 substrate binding site [chemical binding]; other site 488538004520 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 488538004521 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 488538004522 dimerization interface 3.5A [polypeptide binding]; other site 488538004523 active site 488538004524 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 488538004525 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 488538004526 metal binding site [ion binding]; metal-binding site 488538004527 dimer interface [polypeptide binding]; other site 488538004528 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 488538004529 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 488538004530 trimer interface [polypeptide binding]; other site 488538004531 active site 488538004532 substrate binding site [chemical binding]; other site 488538004533 CoA binding site [chemical binding]; other site 488538004534 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 488538004535 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 488538004536 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 488538004537 feedback inhibition sensing region; other site 488538004538 homohexameric interface [polypeptide binding]; other site 488538004539 nucleotide binding site [chemical binding]; other site 488538004540 N-acetyl-L-glutamate binding site [chemical binding]; other site 488538004541 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 488538004542 G1 box; other site 488538004543 GTP/Mg2+ binding site [chemical binding]; other site 488538004544 Switch I region; other site 488538004545 G2 box; other site 488538004546 G3 box; other site 488538004547 Switch II region; other site 488538004548 G4 box; other site 488538004549 G5 box; other site 488538004550 membrane protein insertase; Provisional; Region: PRK01318 488538004551 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 488538004552 Ribonuclease P; Region: Ribonuclease_P; cl00457 488538004553 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488538004554 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 488538004555 ATP binding site [chemical binding]; other site 488538004556 Mg2+ binding site [ion binding]; other site 488538004557 G-X-G motif; other site 488538004558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538004559 active site 488538004560 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 488538004561 active site 488538004562 Int/Topo IB signature motif; other site 488538004563 DNA binding site [nucleotide binding] 488538004564 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 488538004565 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 488538004566 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 488538004567 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 488538004568 substrate binding [chemical binding]; other site 488538004569 active site 488538004570 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 488538004571 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488538004572 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 488538004573 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488538004574 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 488538004575 dimer interface [polypeptide binding]; other site 488538004576 conserved gate region; other site 488538004577 putative PBP binding loops; other site 488538004578 ABC-ATPase subunit interface; other site 488538004579 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 488538004580 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 488538004581 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 488538004582 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 488538004583 Walker A/P-loop; other site 488538004584 ATP binding site [chemical binding]; other site 488538004585 Q-loop/lid; other site 488538004586 ABC transporter signature motif; other site 488538004587 Walker B; other site 488538004588 D-loop; other site 488538004589 H-loop/switch region; other site 488538004590 Helix-turn-helix domains; Region: HTH; cl00088 488538004591 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 488538004592 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 488538004593 integrase; Provisional; Region: int; PHA02601 488538004594 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 488538004595 active site 488538004596 DNA binding site [nucleotide binding] 488538004597 Int/Topo IB signature motif; other site 488538004598 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 488538004599 putative uracil binding site [chemical binding]; other site 488538004600 putative active site [active] 488538004601 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 488538004602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538004603 Coenzyme A binding pocket [chemical binding]; other site 488538004604 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 488538004605 active site 488538004606 DNA binding site [nucleotide binding] 488538004607 catalytic site [active] 488538004608 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 488538004609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004610 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 488538004611 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 488538004612 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538004613 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 488538004614 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538004615 Walker A/P-loop; other site 488538004616 ATP binding site [chemical binding]; other site 488538004617 Q-loop/lid; other site 488538004618 ABC transporter signature motif; other site 488538004619 Walker B; other site 488538004620 D-loop; other site 488538004621 H-loop/switch region; other site 488538004622 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538004623 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 488538004624 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 488538004625 Walker A/P-loop; other site 488538004626 ATP binding site [chemical binding]; other site 488538004627 Q-loop/lid; other site 488538004628 ABC transporter signature motif; other site 488538004629 Walker B; other site 488538004630 D-loop; other site 488538004631 H-loop/switch region; other site 488538004632 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488538004633 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 488538004634 dimer interface [polypeptide binding]; other site 488538004635 conserved gate region; other site 488538004636 putative PBP binding loops; other site 488538004637 ABC-ATPase subunit interface; other site 488538004638 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538004639 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 488538004640 metal binding site [ion binding]; metal-binding site 488538004641 substrate binding pocket [chemical binding]; other site 488538004642 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 488538004643 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 488538004644 dimer interface [polypeptide binding]; other site 488538004645 conserved gate region; other site 488538004646 putative PBP binding loops; other site 488538004647 ABC-ATPase subunit interface; other site 488538004648 multicopper oxidase; Provisional; Region: PRK10965 488538004649 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 488538004650 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 488538004651 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 488538004652 Helix-turn-helix domains; Region: HTH; cl00088 488538004653 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 488538004654 dimerization interface [polypeptide binding]; other site 488538004655 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 488538004656 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 488538004657 Active Sites [active] 488538004658 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 488538004659 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 488538004660 CysD dimerization site [polypeptide binding]; other site 488538004661 G1 box; other site 488538004662 putative GEF interaction site [polypeptide binding]; other site 488538004663 GTP/Mg2+ binding site [chemical binding]; other site 488538004664 Switch I region; other site 488538004665 G2 box; other site 488538004666 G3 box; other site 488538004667 Switch II region; other site 488538004668 G4 box; other site 488538004669 G5 box; other site 488538004670 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 488538004671 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 488538004672 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 488538004673 ligand-binding site [chemical binding]; other site 488538004674 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 488538004675 active site 488538004676 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 488538004677 binding surface 488538004678 TPR motif; other site 488538004679 TPR repeat; Region: TPR_11; pfam13414 488538004680 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 488538004681 binding surface 488538004682 TPR repeat; Region: TPR_11; pfam13414 488538004683 TPR motif; other site 488538004684 TPR repeat; Region: TPR_11; pfam13414 488538004685 TPR repeat; Region: TPR_11; pfam13414 488538004686 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 488538004687 TPR motif; other site 488538004688 binding surface 488538004689 TPR repeat; Region: TPR_11; pfam13414 488538004690 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 488538004691 binding surface 488538004692 TPR motif; other site 488538004693 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 488538004694 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 488538004695 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 488538004696 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 488538004697 putative active site [active] 488538004698 putative metal binding site [ion binding]; other site 488538004699 LrgA family; Region: LrgA; cl00608 488538004700 LrgB-like family; Region: LrgB; cl00596 488538004701 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 488538004702 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 488538004703 putative NAD(P) binding site [chemical binding]; other site 488538004704 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; cl16911 488538004705 Protein of unknown function (DUF520); Region: DUF520; cl00723 488538004706 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538004707 Pirin-related protein [General function prediction only]; Region: COG1741 488538004708 Cupin domain; Region: Cupin_2; cl09118 488538004709 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 488538004710 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538004711 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 488538004712 ligand binding site [chemical binding]; other site 488538004713 Domain of unknown function (DUF336); Region: DUF336; cl01249 488538004714 EamA-like transporter family; Region: EamA; cl01037 488538004715 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538004716 EamA-like transporter family; Region: EamA; cl01037 488538004717 EamA-like transporter family; Region: EamA; cl01037 488538004718 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 488538004719 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 488538004720 homodimer interface [polypeptide binding]; other site 488538004721 substrate-cofactor binding pocket; other site 488538004722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538004723 catalytic residue [active] 488538004724 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 488538004725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538004726 active site 488538004727 phosphorylation site [posttranslational modification] 488538004728 intermolecular recognition site; other site 488538004729 dimerization interface [polypeptide binding]; other site 488538004730 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488538004731 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 488538004732 ATP binding site [chemical binding]; other site 488538004733 Mg2+ binding site [ion binding]; other site 488538004734 G-X-G motif; other site 488538004735 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 488538004736 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 488538004737 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 488538004738 anchoring element; other site 488538004739 dimer interface [polypeptide binding]; other site 488538004740 ATP binding site [chemical binding]; other site 488538004741 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 488538004742 active site 488538004743 putative metal-binding site [ion binding]; other site 488538004744 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 488538004745 recombination protein F; Reviewed; Region: recF; PRK00064 488538004746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538004747 Walker A/P-loop; other site 488538004748 ATP binding site [chemical binding]; other site 488538004749 Q-loop/lid; other site 488538004750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538004751 ABC transporter signature motif; other site 488538004752 Walker B; other site 488538004753 D-loop; other site 488538004754 H-loop/switch region; other site 488538004755 DNA polymerase III subunit beta; Validated; Region: PRK05643 488538004756 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 488538004757 putative DNA binding surface [nucleotide binding]; other site 488538004758 dimer interface [polypeptide binding]; other site 488538004759 beta-clamp/clamp loader binding surface; other site 488538004760 beta-clamp/translesion DNA polymerase binding surface; other site 488538004761 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 488538004762 DnaA N-terminal domain; Region: DnaA_N; pfam11638 488538004763 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 488538004764 Walker A motif; other site 488538004765 ATP binding site [chemical binding]; other site 488538004766 Walker B motif; other site 488538004767 arginine finger; other site 488538004768 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 488538004769 DnaA box-binding interface [nucleotide binding]; other site 488538004770 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 488538004771 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 488538004772 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 488538004773 DNA binding site [nucleotide binding] 488538004774 catalytic residue [active] 488538004775 H2TH interface [polypeptide binding]; other site 488538004776 putative catalytic residues [active] 488538004777 turnover-facilitating residue; other site 488538004778 intercalation triad [nucleotide binding]; other site 488538004779 8OG recognition residue [nucleotide binding]; other site 488538004780 putative reading head residues; other site 488538004781 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 488538004782 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 488538004783 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 488538004784 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 488538004785 S-adenosylmethionine binding site [chemical binding]; other site 488538004786 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; cl16911 488538004787 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 488538004788 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538004789 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 488538004790 Flavoprotein; Region: Flavoprotein; cl08021 488538004791 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 488538004792 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 488538004793 trimer interface [polypeptide binding]; other site 488538004794 active site 488538004795 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 488538004796 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 488538004797 ATP binding site [chemical binding]; other site 488538004798 substrate interface [chemical binding]; other site 488538004799 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 488538004800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538004801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 488538004802 Bacterial SH3 domain; Region: SH3_3; cl02551 488538004803 Bacterial SH3 domain; Region: SH3_3; cl02551 488538004804 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 488538004805 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 488538004806 dimer interface [polypeptide binding]; other site 488538004807 active site 488538004808 heme binding site [chemical binding]; other site 488538004809 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 488538004810 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 488538004811 metal binding site 2 [ion binding]; metal-binding site 488538004812 putative DNA binding helix; other site 488538004813 metal binding site 1 [ion binding]; metal-binding site 488538004814 structural Zn2+ binding site [ion binding]; other site 488538004815 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 488538004816 active site 1 [active] 488538004817 dimer interface [polypeptide binding]; other site 488538004818 active site 2 [active] 488538004819 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 488538004820 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 488538004821 dimer interface [polypeptide binding]; other site 488538004822 active site 488538004823 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 488538004824 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 488538004825 NAD binding site [chemical binding]; other site 488538004826 homotetramer interface [polypeptide binding]; other site 488538004827 homodimer interface [polypeptide binding]; other site 488538004828 substrate binding site [chemical binding]; other site 488538004829 active site 488538004830 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 488538004831 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 488538004832 NAD binding site [chemical binding]; other site 488538004833 homodimer interface [polypeptide binding]; other site 488538004834 active site 488538004835 substrate binding site [chemical binding]; other site 488538004836 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 488538004837 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 488538004838 RNase E interface [polypeptide binding]; other site 488538004839 trimer interface [polypeptide binding]; other site 488538004840 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 488538004841 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 488538004842 RNase E interface [polypeptide binding]; other site 488538004843 trimer interface [polypeptide binding]; other site 488538004844 active site 488538004845 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 488538004846 putative nucleic acid binding region [nucleotide binding]; other site 488538004847 G-X-X-G motif; other site 488538004848 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 488538004849 RNA binding site [nucleotide binding]; other site 488538004850 domain interface; other site 488538004851 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 488538004852 16S/18S rRNA binding site [nucleotide binding]; other site 488538004853 S13e-L30e interaction site [polypeptide binding]; other site 488538004854 25S rRNA binding site [nucleotide binding]; other site 488538004855 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 488538004856 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 488538004857 RNA binding site [nucleotide binding]; other site 488538004858 active site 488538004859 Ribosome-binding factor A; Region: RBFA; cl00542 488538004860 translation initiation factor IF-2; Region: IF-2; TIGR00487 488538004861 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 488538004862 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 488538004863 G1 box; other site 488538004864 putative GEF interaction site [polypeptide binding]; other site 488538004865 GTP/Mg2+ binding site [chemical binding]; other site 488538004866 Switch I region; other site 488538004867 G2 box; other site 488538004868 G3 box; other site 488538004869 Switch II region; other site 488538004870 G4 box; other site 488538004871 G5 box; other site 488538004872 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 488538004873 Translation-initiation factor 2; Region: IF-2; pfam11987 488538004874 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 488538004875 hypothetical protein; Provisional; Region: PRK09190 488538004876 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 488538004877 putative RNA binding cleft [nucleotide binding]; other site 488538004878 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 488538004879 NusA N-terminal domain; Region: NusA_N; pfam08529 488538004880 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 488538004881 RNA binding site [nucleotide binding]; other site 488538004882 homodimer interface [polypeptide binding]; other site 488538004883 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 488538004884 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 488538004885 G-X-X-G motif; other site 488538004886 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 488538004887 ribosome maturation protein RimP; Reviewed; Region: PRK00092 488538004888 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 488538004889 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 488538004890 Sm1 motif; other site 488538004891 D1 - D2 interaction site; other site 488538004892 D3 - B interaction site; other site 488538004893 Hfq - Hfq interaction site; other site 488538004894 RNA binding pocket [nucleotide binding]; other site 488538004895 Sm2 motif; other site 488538004896 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; cl16911 488538004897 S-adenosylmethionine synthetase; Validated; Region: PRK05250 488538004898 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 488538004899 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 488538004900 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 488538004901 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 488538004902 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 488538004903 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 488538004904 putative active site [active] 488538004905 catalytic triad [active] 488538004906 putative dimer interface [polypeptide binding]; other site 488538004907 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 488538004908 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 488538004909 Transporter associated domain; Region: CorC_HlyC; cl08393 488538004910 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 488538004911 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 488538004912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538004913 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 488538004914 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 488538004915 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 488538004916 FeS/SAM binding site; other site 488538004917 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 488538004918 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538004919 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 488538004920 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 488538004921 putative active site [active] 488538004922 putative metal binding site [ion binding]; other site 488538004923 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 488538004924 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 488538004925 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 488538004926 NifU-like domain; Region: NifU; cl00484 488538004927 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 488538004928 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 488538004929 active site 488538004930 HIGH motif; other site 488538004931 dimer interface [polypeptide binding]; other site 488538004932 KMSKS motif; other site 488538004933 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538004934 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 488538004935 PII uridylyl-transferase; Provisional; Region: PRK05092 488538004936 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 488538004937 metal binding triad; other site 488538004938 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 488538004939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 488538004940 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 488538004941 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 488538004942 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 488538004943 MutS domain I; Region: MutS_I; pfam01624 488538004944 MutS domain II; Region: MutS_II; pfam05188 488538004945 MutS family domain IV; Region: MutS_IV; pfam05190 488538004946 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 488538004947 Walker A/P-loop; other site 488538004948 ATP binding site [chemical binding]; other site 488538004949 Q-loop/lid; other site 488538004950 ABC transporter signature motif; other site 488538004951 Walker B; other site 488538004952 D-loop; other site 488538004953 H-loop/switch region; other site 488538004954 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 488538004955 Malic enzyme, N-terminal domain; Region: malic; pfam00390 488538004956 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 488538004957 putative NAD(P) binding site [chemical binding]; other site 488538004958 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 488538004959 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488538004960 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 adenosine...; Region: adenosine_kinase; cd01168 488538004961 substrate binding site [chemical binding]; other site 488538004962 ATP binding site [chemical binding]; other site 488538004963 endonuclease III; Provisional; Region: PRK10702 488538004964 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 488538004965 minor groove reading motif; other site 488538004966 helix-hairpin-helix signature motif; other site 488538004967 substrate binding pocket [chemical binding]; other site 488538004968 active site 488538004969 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 488538004970 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 488538004971 active site 488538004972 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 488538004973 oxidase reductase; Provisional; Region: PTZ00273 488538004974 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538004975 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 488538004976 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 488538004977 ligand binding site [chemical binding]; other site 488538004978 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 488538004979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538004980 Walker A/P-loop; other site 488538004981 ATP binding site [chemical binding]; other site 488538004982 Q-loop/lid; other site 488538004983 ABC transporter signature motif; other site 488538004984 Walker B; other site 488538004985 D-loop; other site 488538004986 H-loop/switch region; other site 488538004987 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 488538004988 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 488538004989 TM-ABC transporter signature motif; other site 488538004990 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 488538004991 TM-ABC transporter signature motif; other site 488538004992 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 488538004993 active site 488538004994 catalytic motif [active] 488538004995 Zn binding site [ion binding]; other site 488538004996 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538004997 active site 488538004998 thymidine kinase; Provisional; Region: PRK04296 488538004999 dihydrodipicolinate reductase; Provisional; Region: PRK00048 488538005000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005001 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 488538005002 chaperone protein DnaJ; Provisional; Region: PRK10767 488538005003 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 488538005004 HSP70 interaction site [polypeptide binding]; other site 488538005005 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 488538005006 substrate binding site [polypeptide binding]; other site 488538005007 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 488538005008 Zn binding sites [ion binding]; other site 488538005009 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 488538005010 dimer interface [polypeptide binding]; other site 488538005011 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 488538005012 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 488538005013 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 488538005014 dimer interface [polypeptide binding]; other site 488538005015 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 488538005016 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 488538005017 ribonuclease PH; Reviewed; Region: rph; PRK00173 488538005018 Ribonuclease PH; Region: RNase_PH_bact; cd11362 488538005019 hexamer interface [polypeptide binding]; other site 488538005020 active site 488538005021 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 488538005022 active site 488538005023 dimerization interface [polypeptide binding]; other site 488538005024 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 488538005025 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 488538005026 FeS/SAM binding site; other site 488538005027 HemN C-terminal domain; Region: HemN_C; pfam06969 488538005028 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 488538005029 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 488538005030 putative ligand binding site [chemical binding]; other site 488538005031 Predicted methyltransferases [General function prediction only]; Region: COG0313 488538005032 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538005033 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538005034 Restriction endonuclease; Region: Mrr_cat; cl00516 488538005035 outer membrane lipoprotein; Provisional; Region: PRK11023 488538005036 BON domain; Region: BON; cl02771 488538005037 BON domain; Region: BON; cl02771 488538005038 glutathione synthetase; Provisional; Region: PRK05246 488538005039 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 488538005040 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538005041 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 488538005042 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 488538005043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005044 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 488538005045 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 488538005046 nucleotide binding site/active site [active] 488538005047 HIT family signature motif; other site 488538005048 catalytic residue [active] 488538005049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488538005050 Coenzyme A binding pocket [chemical binding]; other site 488538005051 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 488538005052 non-specific DNA binding site [nucleotide binding]; other site 488538005053 salt bridge; other site 488538005054 sequence-specific DNA binding site [nucleotide binding]; other site 488538005055 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 488538005056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 488538005057 Smr domain; Region: Smr; cl02619 488538005058 Tim44-like domain; Region: Tim44; cl09208 488538005059 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 488538005060 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 488538005061 SecA binding site; other site 488538005062 Preprotein binding site; other site 488538005063 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 488538005064 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 488538005065 active site 488538005066 catalytic site [active] 488538005067 substrate binding site [chemical binding]; other site 488538005068 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 488538005069 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 488538005070 CoA-binding site [chemical binding]; other site 488538005071 ATP-binding [chemical binding]; other site 488538005072 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 488538005073 active site 488538005074 dimer interface [polypeptide binding]; other site 488538005075 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 488538005076 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 488538005077 substrate binding site [chemical binding]; other site 488538005078 active site 488538005079 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 488538005080 transcription termination factor Rho; Provisional; Region: rho; PRK09376 488538005081 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 488538005082 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 488538005083 RNA binding site [nucleotide binding]; other site 488538005084 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 488538005085 multimer interface [polypeptide binding]; other site 488538005086 Walker A motif; other site 488538005087 ATP binding site [chemical binding]; other site 488538005088 Walker B motif; other site 488538005089 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 488538005090 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 488538005091 active site 488538005092 DNA binding site [nucleotide binding] 488538005093 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 488538005094 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 488538005095 trmE is a tRNA modification GTPase; Region: trmE; cd04164 488538005096 G1 box; other site 488538005097 GTP/Mg2+ binding site [chemical binding]; other site 488538005098 Switch I region; other site 488538005099 G2 box; other site 488538005100 Switch II region; other site 488538005101 G3 box; other site 488538005102 G4 box; other site 488538005103 G5 box; other site 488538005104 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 488538005105 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 488538005106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005107 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 488538005108 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; cl16911 488538005109 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 488538005110 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 488538005111 P-loop; other site 488538005112 Magnesium ion binding site [ion binding]; other site 488538005113 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 488538005114 Magnesium ion binding site [ion binding]; other site 488538005115 ParB-like partition proteins; Region: parB_part; TIGR00180 488538005116 ParB-like nuclease domain; Region: ParBc; cl02129 488538005117 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 488538005118 Lipopolysaccharide-assembly; Region: LptE; cl01125 488538005119 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 488538005120 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 488538005121 HIGH motif; other site 488538005122 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 488538005123 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538005124 active site 488538005125 KMSKS motif; other site 488538005126 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 488538005127 tRNA binding surface [nucleotide binding]; other site 488538005128 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 488538005129 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 488538005130 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488538005131 catalytic residue [active] 488538005132 GTP cyclohydrolase; Provisional; Region: PRK08815 488538005133 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 488538005134 dimerization interface [polypeptide binding]; other site 488538005135 active site 488538005136 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488538005137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538005138 active site 488538005139 phosphorylation site [posttranslational modification] 488538005140 intermolecular recognition site; other site 488538005141 dimerization interface [polypeptide binding]; other site 488538005142 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 488538005143 DNA binding site [nucleotide binding] 488538005144 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 488538005145 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 488538005146 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 488538005147 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 488538005148 binding surface 488538005149 TPR motif; other site 488538005150 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 488538005151 binding surface 488538005152 TPR motif; other site 488538005153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005154 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 488538005155 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 488538005156 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 488538005157 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 488538005158 Fe-S cluster binding site [ion binding]; other site 488538005159 active site 488538005160 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 488538005161 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 488538005162 N-acetyl-D-glucosamine binding site [chemical binding]; other site 488538005163 catalytic residue [active] 488538005164 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 488538005165 MPT binding site; other site 488538005166 trimer interface [polypeptide binding]; other site 488538005167 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 488538005168 RNA/DNA hybrid binding site [nucleotide binding]; other site 488538005169 active site 488538005170 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 488538005171 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; cl16911 488538005172 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538005173 active site 488538005174 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 488538005175 active site 488538005176 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 488538005177 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 488538005178 active site 488538005179 substrate binding site [chemical binding]; other site 488538005180 metal binding site [ion binding]; metal-binding site 488538005181 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 488538005182 active site 488538005183 tetramer interface; other site 488538005184 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 488538005185 dimer interface [polypeptide binding]; other site 488538005186 active site 488538005187 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 488538005188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005189 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 488538005190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005191 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488538005192 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 488538005193 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 488538005194 classical (c) SDRs; Region: SDR_c; cd05233 488538005195 NAD(P) binding site [chemical binding]; other site 488538005196 active site 488538005197 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 488538005198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005199 NAD(P) binding site [chemical binding]; other site 488538005200 active site 488538005201 tartrate dehydrogenase; Provisional; Region: PRK08194 488538005202 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 488538005203 TolB amino-terminal domain; Region: TolB_N; cl00639 488538005204 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 488538005205 N-acetyl-D-glucosamine binding site [chemical binding]; other site 488538005206 catalytic residue [active] 488538005207 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 488538005208 Peptidase family M48; Region: Peptidase_M48; cl12018 488538005209 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 488538005210 TPR motif; other site 488538005211 TPR repeat; Region: TPR_11; pfam13414 488538005212 binding surface 488538005213 TPR repeat; Region: TPR_11; pfam13414 488538005214 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 488538005215 binding surface 488538005216 TPR motif; other site 488538005217 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 488538005218 binding surface 488538005219 TPR repeat; Region: TPR_11; pfam13414 488538005220 TPR motif; other site 488538005221 TPR repeat; Region: TPR_11; pfam13414 488538005222 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 488538005223 binding surface 488538005224 TPR motif; other site 488538005225 TPR repeat; Region: TPR_11; pfam13414 488538005226 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 488538005227 binding surface 488538005228 TPR motif; other site 488538005229 Tetratricopeptide repeat; Region: TPR_16; pfam13432 488538005230 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 488538005231 non-specific DNA binding site [nucleotide binding]; other site 488538005232 salt bridge; other site 488538005233 sequence-specific DNA binding site [nucleotide binding]; other site 488538005234 Cupin domain; Region: Cupin_2; cl09118 488538005235 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 488538005236 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 488538005237 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 488538005238 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 488538005239 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 488538005240 active site 488538005241 FMN binding site [chemical binding]; other site 488538005242 substrate binding site [chemical binding]; other site 488538005243 3Fe-4S cluster binding site [ion binding]; other site 488538005244 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 488538005245 domain_subunit interface; other site 488538005246 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 488538005247 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 488538005248 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 488538005249 putative active site [active] 488538005250 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 488538005251 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 488538005252 Amidase; Region: Amidase; cl11426 488538005253 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 488538005254 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 488538005255 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 488538005256 hydrophobic ligand binding site; other site 488538005257 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538005258 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 488538005259 NAD(P) binding site [chemical binding]; other site 488538005260 catalytic residues [active] 488538005261 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 488538005262 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 488538005263 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 488538005264 FMN-binding pocket [chemical binding]; other site 488538005265 flavin binding motif; other site 488538005266 phosphate binding motif [ion binding]; other site 488538005267 beta-alpha-beta structure motif; other site 488538005268 NAD binding pocket [chemical binding]; other site 488538005269 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 488538005270 catalytic loop [active] 488538005271 iron binding site [ion binding]; other site 488538005272 EamA-like transporter family; Region: EamA; cl01037 488538005273 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538005274 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 488538005275 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005276 NAD(P) binding site [chemical binding]; other site 488538005277 active site 488538005278 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 488538005279 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 488538005280 alpha subunit interface [polypeptide binding]; other site 488538005281 active site 488538005282 substrate binding site [chemical binding]; other site 488538005283 Fe binding site [ion binding]; other site 488538005284 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 488538005285 dimer interface [polypeptide binding]; other site 488538005286 conserved gate region; other site 488538005287 putative PBP binding loops; other site 488538005288 ABC-ATPase subunit interface; other site 488538005289 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 488538005290 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 488538005291 dimer interface [polypeptide binding]; other site 488538005292 conserved gate region; other site 488538005293 putative PBP binding loops; other site 488538005294 ABC-ATPase subunit interface; other site 488538005295 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 488538005296 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 488538005297 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 488538005298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005299 Walker A/P-loop; other site 488538005300 ATP binding site [chemical binding]; other site 488538005301 Q-loop/lid; other site 488538005302 ABC transporter signature motif; other site 488538005303 Walker B; other site 488538005304 D-loop; other site 488538005305 H-loop/switch region; other site 488538005306 TOBE domain; Region: TOBE_2; cl01440 488538005307 Domain of unknown function (DUF336); Region: DUF336; cl01249 488538005308 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 488538005309 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538005310 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 488538005311 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 488538005312 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 488538005313 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 488538005314 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 488538005315 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 488538005316 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 488538005317 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 488538005318 putative [4Fe-4S] binding site [ion binding]; other site 488538005319 putative molybdopterin cofactor binding site [chemical binding]; other site 488538005320 The MopB_CT_3 CD includes a group of related uncharacterized bacterial 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 of the...; Region: MopB_CT_3; cd02786 488538005321 putative molybdopterin cofactor binding site; other site 488538005322 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 488538005323 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 488538005324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 488538005325 dimer interface [polypeptide binding]; other site 488538005326 phosphorylation site [posttranslational modification] 488538005327 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 488538005328 ATP binding site [chemical binding]; other site 488538005329 Mg2+ binding site [ion binding]; other site 488538005330 G-X-G motif; other site 488538005331 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488538005332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538005333 active site 488538005334 phosphorylation site [posttranslational modification] 488538005335 intermolecular recognition site; other site 488538005336 dimerization interface [polypeptide binding]; other site 488538005337 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 488538005338 DNA binding site [nucleotide binding] 488538005339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 488538005340 NMT1-like family; Region: NMT1_2; cl15260 488538005341 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 488538005342 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 488538005343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 488538005344 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 488538005345 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 488538005346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005347 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 488538005348 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 488538005349 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 488538005350 Transcriptional regulators [Transcription]; Region: GntR; COG1802 488538005351 Helix-turn-helix domains; Region: HTH; cl00088 488538005352 FCD domain; Region: FCD; cl11656 488538005353 tricarballylate dehydrogenase; Validated; Region: PRK08274 488538005354 tricarballylate utilization protein B; Provisional; Region: PRK15033 488538005355 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 488538005356 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 488538005357 active site 488538005358 Int/Topo IB signature motif; other site 488538005359 DNA binding site [nucleotide binding] 488538005360 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 488538005361 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 488538005362 active site 488538005363 Int/Topo IB signature motif; other site 488538005364 DNA binding site [nucleotide binding] 488538005365 Domain of unknown function DUF87; Region: DUF87; pfam01935 488538005366 HerA helicase [Replication, recombination, and repair]; Region: COG0433 488538005367 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 488538005368 TrwC relaxase; Region: TrwC; pfam08751 488538005369 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 488538005370 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK13709 488538005371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005372 Family description; Region: UvrD_C_2; cl15862 488538005373 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 488538005374 Ca2+ binding site [ion binding]; other site 488538005375 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 488538005376 Ca2+ binding site [ion binding]; other site 488538005377 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 488538005378 Ca2+ binding site [ion binding]; other site 488538005379 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 488538005380 Ca2+ binding site [ion binding]; other site 488538005381 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 488538005382 Ca2+ binding site [ion binding]; other site 488538005383 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 488538005384 active site 488538005385 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 488538005386 TM-ABC transporter signature motif; other site 488538005387 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 488538005388 TM-ABC transporter signature motif; other site 488538005389 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488538005390 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 488538005391 Walker A/P-loop; other site 488538005392 ATP binding site [chemical binding]; other site 488538005393 Q-loop/lid; other site 488538005394 ABC transporter signature motif; other site 488538005395 Walker B; other site 488538005396 D-loop; other site 488538005397 H-loop/switch region; other site 488538005398 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538005399 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 488538005400 Walker A/P-loop; other site 488538005401 ATP binding site [chemical binding]; other site 488538005402 Q-loop/lid; other site 488538005403 ABC transporter signature motif; other site 488538005404 Walker B; other site 488538005405 D-loop; other site 488538005406 H-loop/switch region; other site 488538005407 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 488538005408 ligand binding site [chemical binding]; other site 488538005409 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 488538005410 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 488538005411 hypothetical protein; Provisional; Region: PRK07036 488538005412 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 488538005413 inhibitor-cofactor binding pocket; inhibition site 488538005414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538005415 catalytic residue [active] 488538005416 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 488538005417 DNA binding residues [nucleotide binding] 488538005418 dimerization interface [polypeptide binding]; other site 488538005419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005420 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 488538005421 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 488538005422 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 488538005423 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538005424 Helix-turn-helix domains; Region: HTH; cl00088 488538005425 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 488538005426 putative substrate binding pocket [chemical binding]; other site 488538005427 dimerization interface [polypeptide binding]; other site 488538005428 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 488538005429 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 488538005430 putative ligand binding site [chemical binding]; other site 488538005431 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 488538005432 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 488538005433 Walker A/P-loop; other site 488538005434 ATP binding site [chemical binding]; other site 488538005435 Q-loop/lid; other site 488538005436 ABC transporter signature motif; other site 488538005437 Walker B; other site 488538005438 D-loop; other site 488538005439 H-loop/switch region; other site 488538005440 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 488538005441 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 488538005442 TM-ABC transporter signature motif; other site 488538005443 Aspergillus nidulans lactam utilization protein LamB and similar proteins; Region: LamB_like; cd11665 488538005444 putative active site [active] 488538005445 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 488538005446 carboxyltransferase (CT) interaction site; other site 488538005447 biotinylation site [posttranslational modification]; other site 488538005448 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 488538005449 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488538005450 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538005451 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 488538005452 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 488538005453 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 488538005454 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 488538005455 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 488538005456 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 488538005457 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 488538005458 Cadherin repeat-like domain; Region: CA_like; cl15786 488538005459 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 488538005460 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 488538005461 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 488538005462 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 488538005463 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 488538005464 putative hydrophobic ligand binding site [chemical binding]; other site 488538005465 protein interface [polypeptide binding]; other site 488538005466 gate; other site 488538005467 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 488538005468 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 488538005469 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488538005470 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 488538005471 Walker A/P-loop; other site 488538005472 ATP binding site [chemical binding]; other site 488538005473 Q-loop/lid; other site 488538005474 ABC transporter signature motif; other site 488538005475 Walker B; other site 488538005476 D-loop; other site 488538005477 H-loop/switch region; other site 488538005478 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488538005479 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 488538005480 Walker A/P-loop; other site 488538005481 ATP binding site [chemical binding]; other site 488538005482 Q-loop/lid; other site 488538005483 ABC transporter signature motif; other site 488538005484 Walker B; other site 488538005485 D-loop; other site 488538005486 H-loop/switch region; other site 488538005487 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 488538005488 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 488538005489 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 488538005490 TM-ABC transporter signature motif; other site 488538005491 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 488538005492 TM-ABC transporter signature motif; other site 488538005493 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 488538005494 Cupin domain; Region: Cupin_2; cl09118 488538005495 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 488538005496 dimer interface [polypeptide binding]; other site 488538005497 conserved gate region; other site 488538005498 putative PBP binding loops; other site 488538005499 ABC-ATPase subunit interface; other site 488538005500 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 488538005501 dimer interface [polypeptide binding]; other site 488538005502 conserved gate region; other site 488538005503 putative PBP binding loops; other site 488538005504 ABC-ATPase subunit interface; other site 488538005505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005506 spermidine/putrescine ABC transporter ATP-binding subunit; Region: potA; TIGR01187 488538005507 Walker A/P-loop; other site 488538005508 ATP binding site [chemical binding]; other site 488538005509 Q-loop/lid; other site 488538005510 ABC transporter signature motif; other site 488538005511 Walker B; other site 488538005512 D-loop; other site 488538005513 H-loop/switch region; other site 488538005514 TOBE domain; Region: TOBE_2; cl01440 488538005515 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 488538005516 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 488538005517 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 488538005518 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 488538005519 active site pocket [active] 488538005520 Protein of unknown function DUF262; Region: DUF262; cl14890 488538005521 Protein of unknown function DUF262; Region: DUF262; cl14890 488538005522 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 488538005523 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 488538005524 inhibitor-cofactor binding pocket; inhibition site 488538005525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538005526 catalytic residue [active] 488538005527 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538005528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005529 Uncharacterized conserved protein [Function unknown]; Region: COG3760 488538005530 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 488538005531 putative deacylase active site [active] 488538005532 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 488538005533 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 488538005534 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 488538005535 binding surface 488538005536 TPR motif; other site 488538005537 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 488538005538 Trm112p-like protein; Region: Trm112p; cl01066 488538005539 Protein of unknown function (DUF971); Region: DUF971; cl01414 488538005540 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 488538005541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005542 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 488538005543 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 488538005544 active site 488538005545 motif I; other site 488538005546 motif II; other site 488538005547 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 488538005548 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 488538005549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538005550 homodimer interface [polypeptide binding]; other site 488538005551 catalytic residue [active] 488538005552 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 488538005553 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005554 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 488538005555 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 488538005556 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 488538005557 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 488538005558 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 488538005559 dimer interface [polypeptide binding]; other site 488538005560 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 488538005561 active site 488538005562 Fe binding site [ion binding]; other site 488538005563 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 488538005564 putative catalytic site [active] 488538005565 putative phosphate binding site [ion binding]; other site 488538005566 active site 488538005567 metal binding site A [ion binding]; metal-binding site 488538005568 DNA binding site [nucleotide binding] 488538005569 putative AP binding site [nucleotide binding]; other site 488538005570 putative metal binding site B [ion binding]; other site 488538005571 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 488538005572 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 488538005573 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 488538005574 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 488538005575 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 488538005576 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 488538005577 FeS/SAM binding site; other site 488538005578 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 488538005579 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 488538005580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005581 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 488538005582 putative active site [active] 488538005583 signal recognition particle protein; Provisional; Region: PRK10867 488538005584 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 488538005585 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 488538005586 P loop; other site 488538005587 GTP binding site [chemical binding]; other site 488538005588 Signal peptide binding domain; Region: SRP_SPB; pfam02978 488538005589 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 488538005590 RimM N-terminal domain; Region: RimM; pfam01782 488538005591 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 488538005592 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 488538005593 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 488538005594 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 488538005595 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 488538005596 substrate binding site [chemical binding]; other site 488538005597 ligand binding site [chemical binding]; other site 488538005598 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 488538005599 substrate binding site [chemical binding]; other site 488538005600 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 488538005601 tartrate dehydrogenase; Provisional; Region: PRK08194 488538005602 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 488538005603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005604 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 488538005605 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 488538005606 dimer interface [polypeptide binding]; other site 488538005607 pyridoxal binding site [chemical binding]; other site 488538005608 ATP binding site [chemical binding]; other site 488538005609 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 488538005610 Iron-sulfur protein interface; other site 488538005611 proximal quinone binding site [chemical binding]; other site 488538005612 SdhD (CybS) interface [polypeptide binding]; other site 488538005613 proximal heme binding site [chemical binding]; other site 488538005614 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 488538005615 putative SdhC subunit interface [polypeptide binding]; other site 488538005616 putative proximal heme binding site [chemical binding]; other site 488538005617 putative Iron-sulfur protein interface [polypeptide binding]; other site 488538005618 putative proximal quinone binding site; other site 488538005619 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 488538005620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005621 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 488538005622 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 488538005623 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 488538005624 Predicted ATPase [General function prediction only]; Region: COG1485 488538005625 malate dehydrogenase; Reviewed; Region: PRK06223 488538005626 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 488538005627 NAD(P) binding site [chemical binding]; other site 488538005628 dimer interface [polypeptide binding]; other site 488538005629 tetramer (dimer of dimers) interface [polypeptide binding]; other site 488538005630 substrate binding site [chemical binding]; other site 488538005631 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 488538005632 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538005633 CoA-ligase; Region: Ligase_CoA; cl02894 488538005634 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 488538005635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005636 CoA-ligase; Region: Ligase_CoA; cl02894 488538005637 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 488538005638 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 488538005639 TPP-binding site [chemical binding]; other site 488538005640 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 488538005641 dimer interface [polypeptide binding]; other site 488538005642 PYR/PP interface [polypeptide binding]; other site 488538005643 TPP binding site [chemical binding]; other site 488538005644 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 488538005645 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 488538005646 E3 interaction surface; other site 488538005647 lipoyl attachment site [posttranslational modification]; other site 488538005648 e3 binding domain; Region: E3_binding; pfam02817 488538005649 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 488538005650 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 488538005651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005652 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538005653 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488538005654 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 488538005655 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 488538005656 active site 488538005657 DNA binding site [nucleotide binding] 488538005658 Int/Topo IB signature motif; other site 488538005659 GAF domain; Region: GAF; cl15785 488538005660 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 488538005661 active site 488538005662 intersubunit interactions; other site 488538005663 catalytic residue [active] 488538005664 primosome assembly protein PriA; Validated; Region: PRK05580 488538005665 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 488538005666 ATP binding site [chemical binding]; other site 488538005667 putative Mg++ binding site [ion binding]; other site 488538005668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005669 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 488538005670 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 488538005671 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 488538005672 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 488538005673 beta subunit interaction interface [polypeptide binding]; other site 488538005674 Walker A motif; other site 488538005675 ATP binding site [chemical binding]; other site 488538005676 Walker B motif; other site 488538005677 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 488538005678 ATP synthase; Region: ATP-synt; cl00365 488538005679 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 488538005680 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 488538005681 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 488538005682 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 488538005683 alpha subunit interaction interface [polypeptide binding]; other site 488538005684 Walker A motif; other site 488538005685 ATP binding site [chemical binding]; other site 488538005686 Walker B motif; other site 488538005687 inhibitor binding site; inhibition site 488538005688 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 488538005689 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14736 488538005690 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 488538005691 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 488538005692 putative active site [active] 488538005693 Ap4A binding site [chemical binding]; other site 488538005694 nudix motif; other site 488538005695 putative metal binding site [ion binding]; other site 488538005696 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 488538005697 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 488538005698 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 488538005699 protein binding site [polypeptide binding]; other site 488538005700 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 488538005701 Catalytic dyad [active] 488538005702 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 488538005703 Sulfatase; Region: Sulfatase; cl10460 488538005704 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 488538005705 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 488538005706 Oligomerisation domain; Region: Oligomerisation; cl00519 488538005707 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 488538005708 active site 488538005709 (T/H)XGH motif; other site 488538005710 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 488538005711 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 488538005712 putative catalytic cysteine [active] 488538005713 gamma-glutamyl kinase; Provisional; Region: PRK05429 488538005714 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 488538005715 nucleotide binding site [chemical binding]; other site 488538005716 homotetrameric interface [polypeptide binding]; other site 488538005717 putative phosphate binding site [ion binding]; other site 488538005718 putative allosteric binding site; other site 488538005719 PUA domain; Region: PUA; cl00607 488538005720 GTPase CgtA; Reviewed; Region: obgE; PRK12299 488538005721 GTP1/OBG; Region: GTP1_OBG; pfam01018 488538005722 Obg GTPase; Region: Obg; cd01898 488538005723 G1 box; other site 488538005724 GTP/Mg2+ binding site [chemical binding]; other site 488538005725 Switch I region; other site 488538005726 G2 box; other site 488538005727 G3 box; other site 488538005728 Switch II region; other site 488538005729 G4 box; other site 488538005730 G5 box; other site 488538005731 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 488538005732 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 488538005733 galactonate dehydratase; Provisional; Region: PRK14017 488538005734 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 488538005735 active site pocket [active] 488538005736 Electron transfer DM13; Region: DM13; cl02735 488538005737 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 488538005738 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 488538005739 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 488538005740 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 488538005741 active site 488538005742 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; cl16911 488538005743 hypothetical protein; Provisional; Region: PRK06034 488538005744 Chorismate mutase type II; Region: CM_2; cl00693 488538005745 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 488538005746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005747 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 488538005748 putative active site [active] 488538005749 diaminopimelate decarboxylase; Region: lysA; TIGR01048 488538005750 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 488538005751 active site 488538005752 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488538005753 substrate binding site [chemical binding]; other site 488538005754 catalytic residues [active] 488538005755 dimer interface [polypeptide binding]; other site 488538005756 argininosuccinate lyase; Provisional; Region: PRK00855 488538005757 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 488538005758 active sites [active] 488538005759 tetramer interface [polypeptide binding]; other site 488538005760 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 488538005761 catalytic residues [active] 488538005762 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 488538005763 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 488538005764 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 488538005765 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 488538005766 Ligand binding site [chemical binding]; other site 488538005767 Electron transfer flavoprotein domain; Region: ETF; pfam01012 488538005768 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 488538005769 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 488538005770 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 488538005771 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 488538005772 homodimer interface [polypeptide binding]; other site 488538005773 NADP binding site [chemical binding]; other site 488538005774 substrate binding site [chemical binding]; other site 488538005775 YGGT family; Region: YGGT; cl00508 488538005776 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 488538005777 Cu(I) binding site [ion binding]; other site 488538005778 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 488538005779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538005780 active site 488538005781 phosphorylation site [posttranslational modification] 488538005782 intermolecular recognition site; other site 488538005783 dimerization interface [polypeptide binding]; other site 488538005784 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 488538005785 DNA binding residues [nucleotide binding] 488538005786 dimerization interface [polypeptide binding]; other site 488538005787 acetyl-CoA synthetase; Provisional; Region: PRK00174 488538005788 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 488538005789 AMP-binding enzyme; Region: AMP-binding; cl15778 488538005790 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488538005791 RecX family; Region: RecX; cl00936 488538005792 ABC-2 type transporter; Region: ABC2_membrane; cl11417 488538005793 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 488538005794 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 488538005795 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 488538005796 trimer interface [polypeptide binding]; other site 488538005797 active site 488538005798 acetylornithine aminotransferase; Provisional; Region: PRK02627 488538005799 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 488538005800 inhibitor-cofactor binding pocket; inhibition site 488538005801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538005802 catalytic residue [active] 488538005803 ornithine carbamoyltransferase; Provisional; Region: PRK00779 488538005804 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 488538005805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005806 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 488538005807 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 488538005808 dimerization interface [polypeptide binding]; other site 488538005809 domain crossover interface; other site 488538005810 redox-dependent activation switch; other site 488538005811 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 488538005812 Cation transport protein; Region: TrkH; cl10514 488538005813 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 488538005814 conserved cys residue [active] 488538005815 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 488538005816 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 488538005817 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 488538005818 dimer interface [polypeptide binding]; other site 488538005819 anticodon binding site; other site 488538005820 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 488538005821 homodimer interface [polypeptide binding]; other site 488538005822 motif 1; other site 488538005823 active site 488538005824 motif 2; other site 488538005825 GAD domain; Region: GAD; pfam02938 488538005826 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 488538005827 active site 488538005828 motif 3; other site 488538005829 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 488538005830 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 488538005831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538005832 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 488538005833 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 488538005834 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 488538005835 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 488538005836 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 488538005837 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 488538005838 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 488538005839 oligomerisation interface [polypeptide binding]; other site 488538005840 mobile loop; other site 488538005841 roof hairpin; other site 488538005842 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 488538005843 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 488538005844 ring oligomerisation interface [polypeptide binding]; other site 488538005845 ATP/Mg binding site [chemical binding]; other site 488538005846 stacking interactions; other site 488538005847 hinge regions; other site 488538005848 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 488538005849 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 488538005850 non-specific DNA binding site [nucleotide binding]; other site 488538005851 salt bridge; other site 488538005852 sequence-specific DNA binding site [nucleotide binding]; other site 488538005853 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 488538005854 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 488538005855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005856 ATP binding site [chemical binding]; other site 488538005857 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 488538005858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005859 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 488538005860 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488538005861 active site 488538005862 nucleotide binding site [chemical binding]; other site 488538005863 HIGH motif; other site 488538005864 KMSKS motif; other site 488538005865 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 488538005866 quinone interaction residues [chemical binding]; other site 488538005867 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 488538005868 active site 488538005869 catalytic residues [active] 488538005870 FMN binding site [chemical binding]; other site 488538005871 substrate binding site [chemical binding]; other site 488538005872 Ribbon-helix-helix domain; Region: RHH_4; cl01775 488538005873 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 488538005874 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 488538005875 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 488538005876 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 488538005877 metal ion-dependent adhesion site (MIDAS); other site 488538005878 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 488538005879 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 488538005880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538005881 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 488538005882 HSP70 interaction site [polypeptide binding]; other site 488538005883 BolA-like protein; Region: BolA; cl00386 488538005884 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 488538005885 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 488538005886 Domain of unknown function DUF21; Region: DUF21; pfam01595 488538005887 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 488538005888 Transporter associated domain; Region: CorC_HlyC; cl08393 488538005889 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 488538005890 active site 488538005891 dimer interface [polypeptide binding]; other site 488538005892 metal binding site [ion binding]; metal-binding site 488538005893 shikimate kinase; Provisional; Region: PRK13946 488538005894 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 488538005895 ADP binding site [chemical binding]; other site 488538005896 magnesium binding site [ion binding]; other site 488538005897 putative shikimate binding site; other site 488538005898 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 488538005899 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 488538005900 active site 488538005901 DNA binding site [nucleotide binding] 488538005902 Int/Topo IB signature motif; other site 488538005903 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 488538005904 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 488538005905 Predicted amidohydrolase [General function prediction only]; Region: COG0388 488538005906 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 488538005907 putative active site [active] 488538005908 catalytic triad [active] 488538005909 dimer interface [polypeptide binding]; other site 488538005910 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 488538005911 GSH binding site [chemical binding]; other site 488538005912 catalytic residues [active] 488538005913 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 488538005914 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538005915 active site 488538005916 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 488538005917 S-adenosylmethionine binding site [chemical binding]; other site 488538005918 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 488538005919 active site 488538005920 8-oxo-dGMP binding site [chemical binding]; other site 488538005921 nudix motif; other site 488538005922 metal binding site [ion binding]; metal-binding site 488538005923 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 488538005924 heterotetramer interface [polypeptide binding]; other site 488538005925 active site pocket [active] 488538005926 cleavage site 488538005927 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 488538005928 PPIC-type PPIASE domain; Region: Rotamase; cl08278 488538005929 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 488538005930 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 488538005931 SEC-C motif; Region: SEC-C; pfam02810 488538005932 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 488538005933 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 488538005934 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 488538005935 S-adenosylmethionine binding site [chemical binding]; other site 488538005936 aspartate kinase; Reviewed; Region: PRK06635 488538005937 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 488538005938 putative nucleotide binding site [chemical binding]; other site 488538005939 putative catalytic residues [active] 488538005940 putative Mg ion binding site [ion binding]; other site 488538005941 putative aspartate binding site [chemical binding]; other site 488538005942 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 488538005943 putative allosteric regulatory site; other site 488538005944 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 488538005945 putative allosteric regulatory residue; other site 488538005946 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 488538005947 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 488538005948 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 488538005949 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 488538005950 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 488538005951 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 488538005952 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 488538005953 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 488538005954 dimer interface [polypeptide binding]; other site 488538005955 motif 1; other site 488538005956 active site 488538005957 motif 2; other site 488538005958 motif 3; other site 488538005959 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 488538005960 anticodon binding site; other site 488538005961 peptide chain release factor 1; Validated; Region: prfA; PRK00591 488538005962 RF-1 domain; Region: RF-1; cl02875 488538005963 RF-1 domain; Region: RF-1; cl02875 488538005964 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; cl16911 488538005965 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 488538005966 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 488538005967 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 488538005968 MOSC domain; Region: MOSC; pfam03473 488538005969 putative peptidase; Provisional; Region: PRK11649 488538005970 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538005971 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 488538005972 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 488538005973 TPP-binding site; other site 488538005974 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538005975 PYR/PP interface [polypeptide binding]; other site 488538005976 dimer interface [polypeptide binding]; other site 488538005977 TPP binding site [chemical binding]; other site 488538005978 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_a; cd00913 488538005979 aromatic arch; other site 488538005980 DCoH dimer interaction site [polypeptide binding]; other site 488538005981 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 488538005982 DCoH tetramer interaction site [polypeptide binding]; other site 488538005983 substrate binding site [chemical binding]; other site 488538005984 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 488538005985 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 488538005986 putative NAD(P) binding site [chemical binding]; other site 488538005987 active site 488538005988 putative substrate binding site [chemical binding]; other site 488538005989 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 488538005990 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 488538005991 short chain dehydrogenase; Provisional; Region: PRK06914 488538005992 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 488538005993 NADP binding site [chemical binding]; other site 488538005994 active site 488538005995 steroid binding site; other site 488538005996 Cupin domain; Region: Cupin_2; cl09118 488538005997 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 488538005998 Mg++ binding site [ion binding]; other site 488538005999 putative catalytic motif [active] 488538006000 Helix-turn-helix domains; Region: HTH; cl00088 488538006001 transcriptional activator RfaH; Region: RfaH; TIGR01955 488538006002 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 488538006003 KOW motif; Region: KOW; cl00354 488538006004 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 488538006005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006006 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 488538006007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006008 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 488538006009 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488538006010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538006011 Walker A/P-loop; other site 488538006012 ATP binding site [chemical binding]; other site 488538006013 Q-loop/lid; other site 488538006014 ABC transporter signature motif; other site 488538006015 Walker B; other site 488538006016 D-loop; other site 488538006017 H-loop/switch region; other site 488538006018 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 488538006019 active site 488538006020 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 488538006021 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538006022 putative ADP-binding pocket [chemical binding]; other site 488538006023 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 488538006024 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538006025 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 488538006026 putative ADP-binding pocket [chemical binding]; other site 488538006027 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 488538006028 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 488538006029 NADP binding site [chemical binding]; other site 488538006030 active site 488538006031 putative substrate binding site [chemical binding]; other site 488538006032 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 488538006033 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 488538006034 NADP-binding site; other site 488538006035 homotetramer interface [polypeptide binding]; other site 488538006036 substrate binding site [chemical binding]; other site 488538006037 homodimer interface [polypeptide binding]; other site 488538006038 active site 488538006039 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 488538006040 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 488538006041 active site 488538006042 dimer interface [polypeptide binding]; other site 488538006043 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 488538006044 Ligand Binding Site [chemical binding]; other site 488538006045 Molecular Tunnel; other site 488538006046 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 488538006047 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538006048 putative ADP-binding pocket [chemical binding]; other site 488538006049 Bacterial sugar transferase; Region: Bac_transf; cl00939 488538006050 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 488538006051 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 488538006052 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 488538006053 NAD(P) binding site [chemical binding]; other site 488538006054 homodimer interface [polypeptide binding]; other site 488538006055 substrate binding site [chemical binding]; other site 488538006056 active site 488538006057 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 488538006058 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 488538006059 Substrate binding site; other site 488538006060 Cupin domain; Region: Cupin_2; cl09118 488538006061 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 488538006062 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 488538006063 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 488538006064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538006065 Walker A/P-loop; other site 488538006066 ATP binding site [chemical binding]; other site 488538006067 Q-loop/lid; other site 488538006068 ABC transporter signature motif; other site 488538006069 Walker B; other site 488538006070 D-loop; other site 488538006071 H-loop/switch region; other site 488538006072 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 488538006073 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 488538006074 NMT1-like family; Region: NMT1_2; cl15260 488538006075 NMT1/THI5 like; Region: NMT1; pfam09084 488538006076 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 488538006077 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 488538006078 ATP binding site [chemical binding]; other site 488538006079 substrate interface [chemical binding]; other site 488538006080 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 488538006081 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 488538006082 active site 488538006083 thiamine phosphate binding site [chemical binding]; other site 488538006084 pyrophosphate binding site [ion binding]; other site 488538006085 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 488538006086 ThiS interaction site; other site 488538006087 putative active site [active] 488538006088 tetramer interface [polypeptide binding]; other site 488538006089 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 488538006090 thiS-thiF/thiG interaction site; other site 488538006091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006092 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 488538006093 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 488538006094 dimer interface [polypeptide binding]; other site 488538006095 substrate binding site [chemical binding]; other site 488538006096 ATP binding site [chemical binding]; other site 488538006097 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 488538006098 GAF domain; Region: GAF; cl15785 488538006099 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 488538006100 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488538006101 DNA polymerase IV; Provisional; Region: PRK02794 488538006102 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 488538006103 active site 488538006104 DNA binding site [nucleotide binding] 488538006105 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 488538006106 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 488538006107 FAD binding site [chemical binding]; other site 488538006108 substrate binding pocket [chemical binding]; other site 488538006109 catalytic base [active] 488538006110 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 488538006111 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 488538006112 Ligand binding site; other site 488538006113 metal-binding site 488538006114 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 488538006115 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 488538006116 XdhC Rossmann domain; Region: XdhC_C; pfam13478 488538006117 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 488538006118 putative hydrophobic ligand binding site [chemical binding]; other site 488538006119 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 488538006120 glucokinase, proteobacterial type; Region: glk; TIGR00749 488538006121 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 488538006122 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 488538006123 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 488538006124 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 488538006125 putative active site [active] 488538006126 Dehydratase family; Region: ILVD_EDD; cl00340 488538006127 6-phosphogluconate dehydratase; Region: edd; TIGR01196 488538006128 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 488538006129 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 488538006130 active site 488538006131 intersubunit interface [polypeptide binding]; other site 488538006132 catalytic residue [active] 488538006133 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 488538006134 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488538006135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006136 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 488538006137 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 488538006138 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 488538006139 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 488538006140 Low molecular weight phosphatase family; Region: LMWPc; cd00115 488538006141 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 488538006142 active site 488538006143 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 488538006144 amphipathic channel; other site 488538006145 Asn-Pro-Ala signature motifs; other site 488538006146 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 488538006147 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 488538006148 putative substrate translocation pore; other site 488538006149 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 488538006150 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 488538006151 G1 box; other site 488538006152 putative GEF interaction site [polypeptide binding]; other site 488538006153 GTP/Mg2+ binding site [chemical binding]; other site 488538006154 Switch I region; other site 488538006155 G2 box; other site 488538006156 G3 box; other site 488538006157 Switch II region; other site 488538006158 G4 box; other site 488538006159 G5 box; other site 488538006160 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 488538006161 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 488538006162 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 488538006163 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 488538006164 Orotate phosphoribosyltransferase homologs [Nucleotide transport and metabolism]; Region: COG0856 488538006165 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538006166 active site 488538006167 choline dehydrogenase; Validated; Region: PRK02106 488538006168 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 488538006169 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 488538006170 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 488538006171 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 488538006172 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 488538006173 amidase; Provisional; Region: PRK07056 488538006174 Amidase; Region: Amidase; cl11426 488538006175 choline dehydrogenase; Validated; Region: PRK02106 488538006176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006177 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 488538006178 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 488538006179 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 488538006180 substrate binding site [chemical binding]; other site 488538006181 catalytic Zn binding site [ion binding]; other site 488538006182 NAD binding site [chemical binding]; other site 488538006183 structural Zn binding site [ion binding]; other site 488538006184 dimer interface [polypeptide binding]; other site 488538006185 Predicted esterase [General function prediction only]; Region: COG0627 488538006186 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538006187 Arginase family; Region: Arginase; cl00306 488538006188 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 488538006189 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488538006190 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 488538006191 active site 488538006192 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 488538006193 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 488538006194 metal binding site [ion binding]; metal-binding site 488538006195 putative dimer interface [polypeptide binding]; other site 488538006196 EamA-like transporter family; Region: EamA; cl01037 488538006197 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538006198 EamA-like transporter family; Region: EamA; cl01037 488538006199 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 488538006200 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 488538006201 substrate binding site [chemical binding]; other site 488538006202 hexamer interface [polypeptide binding]; other site 488538006203 metal binding site [ion binding]; metal-binding site 488538006204 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 488538006205 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488538006206 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 488538006207 putative dimer interface [polypeptide binding]; other site 488538006208 N-terminal domain interface [polypeptide binding]; other site 488538006209 putative substrate binding pocket (H-site) [chemical binding]; other site 488538006210 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 488538006211 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 488538006212 active site residue [active] 488538006213 Isochorismatase family; Region: Isochorismatase; pfam00857 488538006214 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 488538006215 catalytic triad [active] 488538006216 metal binding site [ion binding]; metal-binding site 488538006217 conserved cis-peptide bond; other site 488538006218 salicylate hydroxylase; Provisional; Region: PRK06475 488538006219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006221 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 488538006222 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 488538006223 inhibitor-cofactor binding pocket; inhibition site 488538006224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006225 catalytic residue [active] 488538006226 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 488538006227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488538006228 DNA-binding site [nucleotide binding]; DNA binding site 488538006229 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 488538006230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006231 homodimer interface [polypeptide binding]; other site 488538006232 catalytic residue [active] 488538006233 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 488538006234 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 488538006235 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 488538006236 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 488538006237 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 488538006238 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 488538006239 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 488538006240 homodimer interface [polypeptide binding]; other site 488538006241 NADP binding site [chemical binding]; other site 488538006242 substrate binding site [chemical binding]; other site 488538006243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006244 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538006245 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 488538006246 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 488538006247 active site 488538006248 catalytic site [active] 488538006249 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 488538006250 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 488538006251 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 488538006252 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 488538006253 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 488538006254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538006255 Walker A/P-loop; other site 488538006256 ATP binding site [chemical binding]; other site 488538006257 Q-loop/lid; other site 488538006258 ABC transporter signature motif; other site 488538006259 Walker B; other site 488538006260 D-loop; other site 488538006261 H-loop/switch region; other site 488538006262 TOBE domain; Region: TOBE_2; cl01440 488538006263 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 488538006264 dimer interface [polypeptide binding]; other site 488538006265 conserved gate region; other site 488538006266 putative PBP binding loops; other site 488538006267 ABC-ATPase subunit interface; other site 488538006268 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 488538006269 dimer interface [polypeptide binding]; other site 488538006270 conserved gate region; other site 488538006271 putative PBP binding loops; other site 488538006272 ABC-ATPase subunit interface; other site 488538006273 Arginase family; Region: Arginase; cl00306 488538006274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006275 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 488538006276 putative aminotransferase; Validated; Region: PRK07480 488538006277 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 488538006278 inhibitor-cofactor binding pocket; inhibition site 488538006279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006280 catalytic residue [active] 488538006281 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 488538006282 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 488538006283 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 488538006284 active site 488538006285 substrate binding pocket [chemical binding]; other site 488538006286 dimer interface [polypeptide binding]; other site 488538006287 EamA-like transporter family; Region: EamA; cl01037 488538006288 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538006289 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 488538006290 DNA photolyase; Region: DNA_photolyase; pfam00875 488538006291 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 488538006292 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 488538006293 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 488538006294 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 488538006295 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 488538006296 Intracellular septation protein A; Region: IspA; cl01098 488538006297 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 488538006298 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 488538006299 NADP binding site [chemical binding]; other site 488538006300 homodimer interface [polypeptide binding]; other site 488538006301 active site 488538006302 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488538006303 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 488538006304 substrate binding site [chemical binding]; other site 488538006305 dimer interface [polypeptide binding]; other site 488538006306 ATP binding site [chemical binding]; other site 488538006307 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 488538006308 active site 488538006309 catalytic triad [active] 488538006310 oxyanion hole [active] 488538006311 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 488538006312 ligand binding site [chemical binding]; other site 488538006313 active site 488538006314 UGI interface [polypeptide binding]; other site 488538006315 catalytic site [active] 488538006316 LysR family transcriptional regulator; Provisional; Region: PRK14997 488538006317 Helix-turn-helix domains; Region: HTH; cl00088 488538006318 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 488538006319 putative effector binding pocket; other site 488538006320 dimerization interface [polypeptide binding]; other site 488538006321 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 488538006322 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 488538006323 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 488538006324 ABC transporter; Region: ABC_tran_2; pfam12848 488538006325 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 488538006326 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488538006327 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 488538006328 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538006329 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 488538006330 active site residue [active] 488538006331 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538006332 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 488538006333 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 488538006334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006336 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 488538006337 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538006338 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538006339 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538006340 DctM-like transporters; Region: DctM; pfam06808 488538006341 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 488538006342 Amidase; Region: Amidase; cl11426 488538006343 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 488538006344 ligand binding site [chemical binding]; other site 488538006345 flexible hinge region; other site 488538006346 Protein of unknown function, DUF393; Region: DUF393; cl01136 488538006347 EamA-like transporter family; Region: EamA; cl01037 488538006348 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538006349 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488538006350 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 488538006351 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 488538006352 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 488538006353 active site 488538006354 putative substrate binding pocket [chemical binding]; other site 488538006355 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; cl16911 488538006356 Predicted amidohydrolase [General function prediction only]; Region: COG0388 488538006357 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 488538006358 active site 488538006359 catalytic triad [active] 488538006360 dimer interface [polypeptide binding]; other site 488538006361 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 488538006362 homotrimer interaction site [polypeptide binding]; other site 488538006363 putative active site [active] 488538006364 SlyX; Region: SlyX; cl01090 488538006365 cystathionine beta-lyase; Provisional; Region: PRK07050 488538006366 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 488538006367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538006368 catalytic residue [active] 488538006369 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 488538006370 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 488538006371 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 488538006372 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 488538006373 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 488538006374 dimerization interface [polypeptide binding]; other site 488538006375 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 488538006376 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 488538006377 ATP binding site [chemical binding]; other site 488538006378 Mg2+ binding site [ion binding]; other site 488538006379 G-X-G motif; other site 488538006380 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488538006381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538006382 active site 488538006383 phosphorylation site [posttranslational modification] 488538006384 intermolecular recognition site; other site 488538006385 dimerization interface [polypeptide binding]; other site 488538006386 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 488538006387 DNA binding site [nucleotide binding] 488538006388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 488538006389 NMT1-like family; Region: NMT1_2; cl15260 488538006390 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 488538006391 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 488538006392 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 488538006393 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538006394 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 488538006395 ligand binding site [chemical binding]; other site 488538006396 flexible hinge region; other site 488538006397 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 488538006398 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 488538006399 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 488538006400 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 488538006401 ABC-2 type transporter; Region: ABC2_membrane; cl11417 488538006402 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 488538006403 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 488538006404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538006405 Walker A/P-loop; other site 488538006406 ATP binding site [chemical binding]; other site 488538006407 Q-loop/lid; other site 488538006408 ABC transporter signature motif; other site 488538006409 Walker B; other site 488538006410 D-loop; other site 488538006411 H-loop/switch region; other site 488538006412 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 488538006413 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 488538006414 Walker A/P-loop; other site 488538006415 ATP binding site [chemical binding]; other site 488538006416 Q-loop/lid; other site 488538006417 ABC transporter signature motif; other site 488538006418 Walker B; other site 488538006419 D-loop; other site 488538006420 H-loop/switch region; other site 488538006421 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 488538006422 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 488538006423 dimer interface [polypeptide binding]; other site 488538006424 conserved gate region; other site 488538006425 putative PBP binding loops; other site 488538006426 ABC-ATPase subunit interface; other site 488538006427 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 488538006428 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 488538006429 Walker A/P-loop; other site 488538006430 ATP binding site [chemical binding]; other site 488538006431 Q-loop/lid; other site 488538006432 ABC transporter signature motif; other site 488538006433 Walker B; other site 488538006434 D-loop; other site 488538006435 H-loop/switch region; other site 488538006436 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 488538006437 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 488538006438 dimer interface [polypeptide binding]; other site 488538006439 conserved gate region; other site 488538006440 putative PBP binding loops; other site 488538006441 ABC-ATPase subunit interface; other site 488538006442 NMT1-like family; Region: NMT1_2; cl15260 488538006443 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 488538006444 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 488538006445 [2Fe-2S] cluster binding site [ion binding]; other site 488538006446 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 488538006447 active site 488538006448 substrate binding site [chemical binding]; other site 488538006449 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 488538006450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538006451 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 488538006452 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 488538006453 iron-sulfur cluster [ion binding]; other site 488538006454 [2Fe-2S] cluster binding site [ion binding]; other site 488538006455 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 488538006456 molybdopterin cofactor binding site; other site 488538006457 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 488538006458 molybdopterin cofactor binding site; other site 488538006459 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 488538006460 putative molybdopterin cofactor binding site; other site 488538006461 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 488538006462 4Fe-4S binding domain; Region: Fer4; cl02805 488538006463 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 488538006464 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 488538006465 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 488538006466 alpha subunit interface [polypeptide binding]; other site 488538006467 active site 488538006468 substrate binding site [chemical binding]; other site 488538006469 Fe binding site [ion binding]; other site 488538006470 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538006471 Helix-turn-helix domains; Region: HTH; cl00088 488538006472 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 488538006473 dimerization interface [polypeptide binding]; other site 488538006474 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488538006475 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 488538006476 oligomerization interface [polypeptide binding]; other site 488538006477 active site 488538006478 metal binding site [ion binding]; metal-binding site 488538006479 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 488538006480 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 488538006481 Potassium binding sites [ion binding]; other site 488538006482 Cesium cation binding sites [ion binding]; other site 488538006483 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 488538006484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538006485 Helix-turn-helix domains; Region: HTH; cl00088 488538006486 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 488538006487 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538006488 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 488538006489 NAD(P) binding site [chemical binding]; other site 488538006490 catalytic residues [active] 488538006491 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 488538006492 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 488538006493 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 488538006494 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 488538006495 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 488538006496 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 488538006497 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488538006498 PYR/PP interface [polypeptide binding]; other site 488538006499 dimer interface [polypeptide binding]; other site 488538006500 TPP binding site [chemical binding]; other site 488538006501 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 488538006502 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 488538006503 TPP-binding site [chemical binding]; other site 488538006504 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 488538006505 choline-sulfatase; Region: chol_sulfatase; TIGR03417 488538006506 Sulfatase; Region: Sulfatase; cl10460 488538006507 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 488538006508 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 488538006509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 488538006510 putative acyl-acceptor binding pocket; other site 488538006511 Helix-turn-helix domain; Region: HTH_18; pfam12833 488538006512 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; cl02333 488538006513 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 488538006514 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 488538006515 substrate binding pocket [chemical binding]; other site 488538006516 substrate-Mg2+ binding site; other site 488538006517 aspartate-rich region 1; other site 488538006518 aspartate-rich region 2; other site 488538006519 phytoene desaturase; Region: crtI_fam; TIGR02734 488538006520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006521 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 488538006522 active site lid residues [active] 488538006523 substrate binding pocket [chemical binding]; other site 488538006524 catalytic residues [active] 488538006525 substrate-Mg2+ binding site; other site 488538006526 aspartate-rich region 1; other site 488538006527 aspartate-rich region 2; other site 488538006528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006529 beta-carotene 15,15'-monooxygenase, Brp/Blh family; Region: blh_monoox; TIGR03753 488538006530 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 488538006531 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 488538006532 homotetramer interface [polypeptide binding]; other site 488538006533 FMN binding site [chemical binding]; other site 488538006534 homodimer contacts [polypeptide binding]; other site 488538006535 putative active site [active] 488538006536 putative substrate binding site [chemical binding]; other site 488538006537 Transcriptional regulator [Transcription]; Region: IclR; COG1414 488538006538 Helix-turn-helix domains; Region: HTH; cl00088 488538006539 Bacterial transcriptional regulator; Region: IclR; pfam01614 488538006540 choline dehydrogenase; Validated; Region: PRK02106 488538006541 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 488538006542 Integral membrane protein TerC family; Region: TerC; cl10468 488538006543 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 488538006544 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 488538006545 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 488538006546 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538006547 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 488538006548 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 488538006549 histidinol dehydrogenase; Region: hisD; TIGR00069 488538006550 NAD binding site [chemical binding]; other site 488538006551 dimerization interface [polypeptide binding]; other site 488538006552 product binding site; other site 488538006553 substrate binding site [chemical binding]; other site 488538006554 zinc binding site [ion binding]; other site 488538006555 catalytic residues [active] 488538006556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006557 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 488538006558 NAD(P) binding site [chemical binding]; other site 488538006559 active site 488538006560 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 488538006561 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 488538006562 NAD(P) binding site [chemical binding]; other site 488538006563 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 488538006564 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488538006565 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 488538006566 dimer interface [polypeptide binding]; other site 488538006567 active site 488538006568 metal binding site [ion binding]; metal-binding site 488538006569 glutathione binding site [chemical binding]; other site 488538006570 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 488538006571 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 488538006572 motif II; other site 488538006573 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 488538006574 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 488538006575 amidase catalytic site [active] 488538006576 Zn binding residues [ion binding]; other site 488538006577 substrate binding site [chemical binding]; other site 488538006578 NlpC/P60 family; Region: NLPC_P60; cl11438 488538006579 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 488538006580 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 488538006581 muropeptide transporter; Validated; Region: ampG; PRK11010 488538006582 muropeptide transporter; Reviewed; Region: ampG; PRK11902 488538006583 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 488538006584 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 488538006585 putative active site [active] 488538006586 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 488538006587 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 488538006588 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 488538006589 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 488538006590 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 488538006591 putative hydrophobic ligand binding site [chemical binding]; other site 488538006592 hypothetical protein; Provisional; Region: PRK07550 488538006593 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 488538006594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006595 homodimer interface [polypeptide binding]; other site 488538006596 catalytic residue [active] 488538006597 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 488538006598 putative FMN binding site [chemical binding]; other site 488538006599 putative dimer interface [polypeptide binding]; other site 488538006600 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 488538006601 Helix-turn-helix domain; Region: HTH_18; pfam12833 488538006602 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 488538006603 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538006604 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 488538006605 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 488538006606 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 488538006607 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 488538006608 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 488538006609 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 488538006610 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 488538006611 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 488538006612 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 488538006613 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 488538006614 motif II; other site 488538006615 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 488538006616 inhibitor site; inhibition site 488538006617 active site 488538006618 dimer interface [polypeptide binding]; other site 488538006619 catalytic residue [active] 488538006620 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538006621 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 488538006622 NAD(P) binding site [chemical binding]; other site 488538006623 catalytic residues [active] 488538006624 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 488538006625 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 488538006626 NAD(P) binding site [chemical binding]; other site 488538006627 catalytic residues [active] 488538006628 catalytic residues [active] 488538006629 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 488538006630 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488538006631 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 488538006632 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 488538006633 tetramer interface [polypeptide binding]; other site 488538006634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006635 catalytic residue [active] 488538006636 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 488538006637 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538006638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006639 FAD dependent oxidoreductase; Region: DAO; pfam01266 488538006640 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 488538006641 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 488538006642 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 488538006643 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 488538006644 DNA-binding site [nucleotide binding]; DNA binding site 488538006645 RNA-binding motif; other site 488538006646 Predicted permeases [General function prediction only]; Region: RarD; COG2962 488538006647 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 488538006648 active site 488538006649 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 488538006650 Ligand Binding Site [chemical binding]; other site 488538006651 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 488538006652 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 488538006653 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488538006654 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 488538006655 dimerization interface [polypeptide binding]; other site 488538006656 putative DNA binding site [nucleotide binding]; other site 488538006657 putative Zn2+ binding site [ion binding]; other site 488538006658 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 488538006659 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 488538006660 putative active site [active] 488538006661 putative CoA binding site [chemical binding]; other site 488538006662 nudix motif; other site 488538006663 metal binding site [ion binding]; metal-binding site 488538006664 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 488538006665 active site 488538006666 NTP binding site [chemical binding]; other site 488538006667 metal binding triad [ion binding]; metal-binding site 488538006668 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 488538006669 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 488538006670 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 488538006671 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 488538006672 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 488538006673 [2Fe-2S] cluster binding site [ion binding]; other site 488538006674 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 488538006675 cytochrome b; Provisional; Region: CYTB; MTH00156 488538006676 Qi binding site; other site 488538006677 intrachain domain interface; other site 488538006678 interchain domain interface [polypeptide binding]; other site 488538006679 heme bH binding site [chemical binding]; other site 488538006680 heme bL binding site [chemical binding]; other site 488538006681 Qo binding site; other site 488538006682 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 488538006683 interchain domain interface [polypeptide binding]; other site 488538006684 intrachain domain interface; other site 488538006685 Qi binding site; other site 488538006686 Qo binding site; other site 488538006687 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 488538006688 EamA-like transporter family; Region: EamA; cl01037 488538006689 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538006690 GTP-binding protein YchF; Reviewed; Region: PRK09601 488538006691 YchF GTPase; Region: YchF; cd01900 488538006692 G1 box; other site 488538006693 GTP/Mg2+ binding site [chemical binding]; other site 488538006694 Switch I region; other site 488538006695 G2 box; other site 488538006696 Switch II region; other site 488538006697 G3 box; other site 488538006698 G4 box; other site 488538006699 G5 box; other site 488538006700 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 488538006701 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 488538006702 putative active site [active] 488538006703 catalytic residue [active] 488538006704 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 488538006705 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 488538006706 5S rRNA interface [nucleotide binding]; other site 488538006707 CTC domain interface [polypeptide binding]; other site 488538006708 L16 interface [polypeptide binding]; other site 488538006709 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 488538006710 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 488538006711 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488538006712 active site 488538006713 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 488538006714 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 488538006715 Uncharacterized conserved protein [Function unknown]; Region: COG1565 488538006716 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 488538006717 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 488538006718 Membrane fusogenic activity; Region: BMFP; cl01115 488538006719 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 488538006720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006721 Helix-turn-helix domains; Region: HTH; cl00088 488538006722 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 488538006723 dimer interface [polypeptide binding]; other site 488538006724 putative tRNA-binding site [nucleotide binding]; other site 488538006725 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488538006726 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 488538006727 dimerization interface [polypeptide binding]; other site 488538006728 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 488538006729 dimer interface [polypeptide binding]; other site 488538006730 phosphorylation site [posttranslational modification] 488538006731 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 488538006732 ATP binding site [chemical binding]; other site 488538006733 Mg2+ binding site [ion binding]; other site 488538006734 G-X-G motif; other site 488538006735 osmolarity response regulator; Provisional; Region: ompR; PRK09468 488538006736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 488538006737 active site 488538006738 phosphorylation site [posttranslational modification] 488538006739 intermolecular recognition site; other site 488538006740 dimerization interface [polypeptide binding]; other site 488538006741 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 488538006742 DNA binding site [nucleotide binding] 488538006743 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 488538006744 Helix-turn-helix domains; Region: HTH; cl00088 488538006745 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 488538006746 homodimer interface [polypeptide binding]; other site 488538006747 substrate-cofactor binding pocket; other site 488538006748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006749 catalytic residue [active] 488538006750 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 488538006751 MoaE interaction surface [polypeptide binding]; other site 488538006752 MoeB interaction surface [polypeptide binding]; other site 488538006753 thiocarboxylated glycine; other site 488538006754 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 488538006755 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 488538006756 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 488538006757 GIY-YIG motif/motif A; other site 488538006758 active site 488538006759 catalytic site [active] 488538006760 putative DNA binding site [nucleotide binding]; other site 488538006761 metal binding site [ion binding]; metal-binding site 488538006762 UvrB/uvrC motif; Region: UVR; pfam02151 488538006763 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 488538006764 excinuclease ABC subunit B; Provisional; Region: PRK05298 488538006765 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 488538006766 ATP binding site [chemical binding]; other site 488538006767 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 488538006768 nucleotide binding region [chemical binding]; other site 488538006769 ATP-binding site [chemical binding]; other site 488538006770 Ultra-violet resistance protein B; Region: UvrB; pfam12344 488538006771 UvrB/uvrC motif; Region: UVR; pfam02151 488538006772 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 488538006773 aspartate aminotransferase; Provisional; Region: PRK05764 488538006774 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 488538006775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538006776 homodimer interface [polypeptide binding]; other site 488538006777 catalytic residue [active] 488538006778 Cadherin prodomain like; Region: Cadherin_pro; cl07391 488538006779 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 488538006780 active site 488538006781 TMAO/DMSO reductase; Reviewed; Region: PRK05363 488538006782 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 488538006783 Moco binding site; other site 488538006784 metal coordination site [ion binding]; other site 488538006785 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 488538006786 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 488538006787 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 488538006788 putative DNA binding site [nucleotide binding]; other site 488538006789 putative Zn2+ binding site [ion binding]; other site 488538006790 AsnC family; Region: AsnC_trans_reg; pfam01037 488538006791 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 488538006792 High-affinity nickel-transport protein; Region: NicO; cl00964 488538006793 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 488538006794 Helix-turn-helix domains; Region: HTH; cl00088 488538006795 metal binding site 2 [ion binding]; metal-binding site 488538006796 putative DNA binding helix; other site 488538006797 metal binding site 1 [ion binding]; metal-binding site 488538006798 dimer interface [polypeptide binding]; other site 488538006799 structural Zn2+ binding site [ion binding]; other site 488538006800 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 488538006801 putative PBP binding regions; other site 488538006802 ABC-ATPase subunit interface; other site 488538006803 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 488538006804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538006805 Walker A/P-loop; other site 488538006806 ATP binding site [chemical binding]; other site 488538006807 Q-loop/lid; other site 488538006808 ABC transporter signature motif; other site 488538006809 Walker B; other site 488538006810 D-loop; other site 488538006811 H-loop/switch region; other site 488538006812 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 488538006813 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 488538006814 metal binding site [ion binding]; metal-binding site 488538006815 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 488538006816 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 488538006817 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 488538006818 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 488538006819 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488538006820 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538006821 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 488538006822 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488538006823 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538006824 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 488538006825 IMP binding site; other site 488538006826 dimer interface [polypeptide binding]; other site 488538006827 interdomain contacts; other site 488538006828 partial ornithine binding site; other site 488538006829 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 488538006830 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 488538006831 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 488538006832 catalytic site [active] 488538006833 subunit interface [polypeptide binding]; other site 488538006834 GatB domain; Region: GatB_Yqey; cl11497 488538006835 DNA primase, catalytic core; Region: dnaG; TIGR01391 488538006836 CHC2 zinc finger; Region: zf-CHC2; cl15369 488538006837 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 488538006838 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 488538006839 active site 488538006840 metal binding site [ion binding]; metal-binding site 488538006841 interdomain interaction site; other site 488538006842 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 488538006843 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 488538006844 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 488538006845 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 488538006846 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 488538006847 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 488538006848 DNA binding residues [nucleotide binding] 488538006849 YCII-related domain; Region: YCII; cl00999 488538006850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488538006851 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 488538006852 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 488538006853 DNA binding site [nucleotide binding] 488538006854 active site 488538006855 LysE type translocator; Region: LysE; cl00565 488538006856 LysE type translocator; Region: LysE; cl00565 488538006857 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 488538006858 active site 488538006859 D-cysteine desulfhydrase; Validated; Region: PRK03910 488538006860 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 488538006861 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538006862 catalytic residue [active] 488538006863 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 488538006864 LysE type translocator; Region: LysE; cl00565 488538006865 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 488538006866 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 488538006867 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 488538006868 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 488538006869 catalytic triad [active] 488538006870 Ribbon-helix-helix domain; Region: RHH_4; cl01775 488538006871 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 488538006872 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; cl16911 488538006873 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; cl16911 488538006874 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 488538006875 Catalytic site [active] 488538006876 Uncharacterized conserved protein [Function unknown]; Region: COG5323 488538006877 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 488538006878 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 488538006879 P22 coat protein - gene protein 5; Region: P22_CoatProtein; cl10302 488538006880 Phage minor tail protein; Region: Phage_min_tail; cl01940 488538006881 Phage minor tail protein L; Region: Phage_tail_L; cl01908 488538006882 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 488538006883 NlpC/P60 family; Region: NLPC_P60; cl11438 488538006884 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 488538006885 Phage-related protein, tail component [Function unknown]; Region: COG4733 488538006886 Putative phage tail protein; Region: Phage-tail_3; pfam13550 488538006887 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; cl01155 488538006888 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 488538006889 catalytic residue [active] 488538006890 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 488538006891 substrate binding pocket [chemical binding]; other site 488538006892 chain length determination region; other site 488538006893 substrate-Mg2+ binding site; other site 488538006894 catalytic residues [active] 488538006895 aspartate-rich region 1; other site 488538006896 active site lid residues [active] 488538006897 aspartate-rich region 2; other site 488538006898 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 488538006899 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 488538006900 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 488538006901 S-adenosylmethionine binding site [chemical binding]; other site 488538006902 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 488538006903 tandem repeat interface [polypeptide binding]; other site 488538006904 oligomer interface [polypeptide binding]; other site 488538006905 active site residues [active] 488538006906 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 488538006907 dimer interface [polypeptide binding]; other site 488538006908 motif 1; other site 488538006909 active site 488538006910 motif 2; other site 488538006911 motif 3; other site 488538006912 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 488538006913 pyruvate phosphate dikinase; Provisional; Region: PRK09279 488538006914 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 488538006915 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 488538006916 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 488538006917 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 488538006918 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 488538006919 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 488538006920 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 488538006921 Walker A/P-loop; other site 488538006922 ATP binding site [chemical binding]; other site 488538006923 Q-loop/lid; other site 488538006924 ABC transporter signature motif; other site 488538006925 Walker B; other site 488538006926 D-loop; other site 488538006927 H-loop/switch region; other site 488538006928 hypothetical protein; Validated; Region: PRK09039 488538006929 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 488538006930 ligand binding site [chemical binding]; other site 488538006931 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 488538006932 active site 488538006933 dimerization interface [polypeptide binding]; other site 488538006934 elongation factor P; Validated; Region: PRK00529 488538006935 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 488538006936 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 488538006937 RNA binding site [nucleotide binding]; other site 488538006938 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 488538006939 RNA binding site [nucleotide binding]; other site 488538006940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538006941 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 488538006942 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 488538006943 transketolase; Reviewed; Region: PRK05899 488538006944 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 488538006945 TPP-binding site [chemical binding]; other site 488538006946 dimer interface [polypeptide binding]; other site 488538006947 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 488538006948 PYR/PP interface [polypeptide binding]; other site 488538006949 dimer interface [polypeptide binding]; other site 488538006950 TPP binding site [chemical binding]; other site 488538006951 Cell division protein ZapA; Region: ZapA; cl01146 488538006952 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 488538006953 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 488538006954 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 488538006955 putative active site [active] 488538006956 metal binding site [ion binding]; metal-binding site 488538006957 homodimer binding site [polypeptide binding]; other site 488538006958 Transcriptional regulator; Region: Transcrip_reg; cl00361 488538006959 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 488538006960 active site 488538006961 putative DNA-binding cleft [nucleotide binding]; other site 488538006962 dimer interface [polypeptide binding]; other site 488538006963 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 488538006964 RuvA N terminal domain; Region: RuvA_N; pfam01330 488538006965 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 488538006966 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 488538006967 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 488538006968 Walker A motif; other site 488538006969 ATP binding site [chemical binding]; other site 488538006970 Walker B motif; other site 488538006971 arginine finger; other site 488538006972 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 488538006973 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 488538006974 active site 488538006975 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 488538006976 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 488538006977 translocation protein TolB; Provisional; Region: tolB; PRK05137 488538006978 TolB amino-terminal domain; Region: TolB_N; cl00639 488538006979 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 488538006980 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 488538006981 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 488538006982 ligand binding site [chemical binding]; other site 488538006983 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 488538006984 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 488538006985 Ligand Binding Site [chemical binding]; other site 488538006986 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 488538006987 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 488538006988 Walker A motif; other site 488538006989 ATP binding site [chemical binding]; other site 488538006990 Walker B motif; other site 488538006991 arginine finger; other site 488538006992 Peptidase family M41; Region: Peptidase_M41; pfam01434 488538006993 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 488538006994 dihydropteroate synthase; Region: DHPS; TIGR01496 488538006995 substrate binding pocket [chemical binding]; other site 488538006996 dimer interface [polypeptide binding]; other site 488538006997 inhibitor binding site; inhibition site 488538006998 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 488538006999 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 488538007000 active site 488538007001 substrate binding site [chemical binding]; other site 488538007002 metal binding site [ion binding]; metal-binding site 488538007003 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 488538007004 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538007005 catalytic residue [active] 488538007006 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 488538007007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007008 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 488538007009 putative L-serine binding site [chemical binding]; other site 488538007010 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 488538007011 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 488538007012 GDP-binding site [chemical binding]; other site 488538007013 ACT binding site; other site 488538007014 IMP binding site; other site 488538007015 PemK-like protein; Region: PemK; cl00995 488538007016 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 488538007017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 488538007018 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 488538007019 DNA binding residues [nucleotide binding] 488538007020 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 488538007021 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 488538007022 RNA binding surface [nucleotide binding]; other site 488538007023 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 488538007024 active site 488538007025 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 488538007026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538007027 Walker A/P-loop; other site 488538007028 ATP binding site [chemical binding]; other site 488538007029 Q-loop/lid; other site 488538007030 ABC transporter signature motif; other site 488538007031 Walker B; other site 488538007032 D-loop; other site 488538007033 H-loop/switch region; other site 488538007034 ABC transporter; Region: ABC_tran_2; pfam12848 488538007035 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 488538007036 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 488538007037 VacJ like lipoprotein; Region: VacJ; cl01073 488538007038 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 488538007039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538007040 Family description; Region: UvrD_C_2; cl15862 488538007041 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 488538007042 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; cl16911 488538007043 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488538007044 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488538007045 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 488538007046 active site 488538007047 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 488538007048 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 488538007049 nucleotide binding pocket [chemical binding]; other site 488538007050 K-X-D-G motif; other site 488538007051 catalytic site [active] 488538007052 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 488538007053 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 488538007054 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 488538007055 Dimer interface [polypeptide binding]; other site 488538007056 BRCT sequence motif; other site 488538007057 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 488538007058 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 488538007059 Walker A/P-loop; other site 488538007060 ATP binding site [chemical binding]; other site 488538007061 Q-loop/lid; other site 488538007062 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 488538007063 Q-loop/lid; other site 488538007064 ABC transporter signature motif; other site 488538007065 Walker B; other site 488538007066 D-loop; other site 488538007067 H-loop/switch region; other site 488538007068 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 488538007069 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 488538007070 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 488538007071 cell division protein FtsZ; Validated; Region: PRK09330 488538007072 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 488538007073 nucleotide binding site [chemical binding]; other site 488538007074 SulA interaction site; other site 488538007075 cell division protein FtsZ; Validated; Region: PRK09330 488538007076 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 488538007077 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 488538007078 Cell division protein FtsA; Region: FtsA; cl11496 488538007079 Cell division protein FtsA; Region: FtsA; cl11496 488538007080 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 488538007081 Cell division protein FtsQ; Region: FtsQ; pfam03799 488538007082 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 488538007083 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 488538007084 ATP-grasp domain; Region: ATP-grasp_4; cl03087 488538007085 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 488538007086 FAD binding domain; Region: FAD_binding_4; pfam01565 488538007087 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 488538007088 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 488538007089 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 488538007090 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488538007091 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488538007092 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 488538007093 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 488538007094 active site 488538007095 homodimer interface [polypeptide binding]; other site 488538007096 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 488538007097 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 488538007098 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488538007099 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488538007100 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 488538007101 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 488538007102 Mg++ binding site [ion binding]; other site 488538007103 putative catalytic motif [active] 488538007104 putative substrate binding site [chemical binding]; other site 488538007105 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 488538007106 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 488538007107 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488538007108 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 488538007109 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 488538007110 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488538007111 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488538007112 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 488538007113 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 488538007114 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 488538007115 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 488538007116 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 488538007117 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 488538007118 S-adenosylmethionine binding site [chemical binding]; other site 488538007119 MraZ protein; Region: MraZ; pfam02381 488538007120 cell division protein MraZ; Reviewed; Region: PRK00326 488538007121 MraZ protein; Region: MraZ; pfam02381 488538007122 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; cl16911 488538007123 ABC transporter ATPase component; Reviewed; Region: PRK11147 488538007124 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 488538007125 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 488538007126 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 488538007127 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 488538007128 putative metal binding site [ion binding]; other site 488538007129 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; cl02542 488538007130 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 488538007131 CPxP motif; other site 488538007132 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 488538007133 putative acyl-acceptor binding pocket; other site 488538007134 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 488538007135 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 488538007136 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 488538007137 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 488538007138 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 488538007139 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 488538007140 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 488538007141 LytTr DNA-binding domain; Region: LytTR; cl04498 488538007142 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 488538007143 active site residue [active] 488538007144 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 488538007145 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 488538007146 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 488538007147 catalytic residues [active] 488538007148 dimer interface [polypeptide binding]; other site 488538007149 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538007150 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 488538007151 C-terminal domain interface [polypeptide binding]; other site 488538007152 GSH binding site (G-site) [chemical binding]; other site 488538007153 dimer interface [polypeptide binding]; other site 488538007154 SET domain; Region: SET; cl02566 488538007155 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 488538007156 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538007157 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 488538007158 C-terminal domain interface [polypeptide binding]; other site 488538007159 GSH binding site (G-site) [chemical binding]; other site 488538007160 dimer interface [polypeptide binding]; other site 488538007161 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 488538007162 dimer interface [polypeptide binding]; other site 488538007163 substrate binding pocket (H-site) [chemical binding]; other site 488538007164 N-terminal domain interface [polypeptide binding]; other site 488538007165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007166 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 488538007167 NAD(P) binding site [chemical binding]; other site 488538007168 active site 488538007169 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 488538007170 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 488538007171 motif II; other site 488538007172 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538007173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538007174 Helix-turn-helix domains; Region: HTH; cl00088 488538007175 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 488538007176 dimerization interface [polypeptide binding]; other site 488538007177 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 488538007178 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 488538007179 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 488538007180 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 488538007181 elongation factor Tu; Reviewed; Region: PRK00049 488538007182 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 488538007183 G1 box; other site 488538007184 GEF interaction site [polypeptide binding]; other site 488538007185 GTP/Mg2+ binding site [chemical binding]; other site 488538007186 Switch I region; other site 488538007187 G2 box; other site 488538007188 G3 box; other site 488538007189 Switch II region; other site 488538007190 G4 box; other site 488538007191 G5 box; other site 488538007192 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 488538007193 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 488538007194 Antibiotic Binding Site [chemical binding]; other site 488538007195 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 488538007196 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 488538007197 tetramer interface [polypeptide binding]; other site 488538007198 active site 488538007199 Mg2+/Mn2+ binding site [ion binding]; other site 488538007200 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538007201 GST_N family, unknown subfamily 2; 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_2; cd03047 488538007202 putative C-terminal domain interface [polypeptide binding]; other site 488538007203 putative GSH binding site (G-site) [chemical binding]; other site 488538007204 putative dimer interface [polypeptide binding]; other site 488538007205 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 488538007206 N-terminal domain interface [polypeptide binding]; other site 488538007207 dimer interface [polypeptide binding]; other site 488538007208 substrate binding pocket (H-site) [chemical binding]; other site 488538007209 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 488538007210 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 488538007211 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 488538007212 putative homodimer interface [polypeptide binding]; other site 488538007213 KOW motif; Region: KOW; cl00354 488538007214 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 488538007215 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 488538007216 23S rRNA interface [nucleotide binding]; other site 488538007217 L7/L12 interface [polypeptide binding]; other site 488538007218 putative thiostrepton binding site; other site 488538007219 L25 interface [polypeptide binding]; other site 488538007220 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 488538007221 mRNA/rRNA interface [nucleotide binding]; other site 488538007222 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 488538007223 23S rRNA interface [nucleotide binding]; other site 488538007224 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 488538007225 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 488538007226 L11 interface [polypeptide binding]; other site 488538007227 putative EF-Tu interaction site [polypeptide binding]; other site 488538007228 putative EF-G interaction site [polypeptide binding]; other site 488538007229 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 488538007230 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 488538007231 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 488538007232 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 488538007233 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 488538007234 RPB11 interaction site [polypeptide binding]; other site 488538007235 RPB12 interaction site [polypeptide binding]; other site 488538007236 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 488538007237 RPB1 interaction site [polypeptide binding]; other site 488538007238 RPB11 interaction site [polypeptide binding]; other site 488538007239 RPB10 interaction site [polypeptide binding]; other site 488538007240 RPB3 interaction site [polypeptide binding]; other site 488538007241 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 488538007242 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 488538007243 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 488538007244 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 488538007245 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 488538007246 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 488538007247 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 488538007248 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 488538007249 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 488538007250 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 488538007251 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 488538007252 DNA binding site [nucleotide binding] 488538007253 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 488538007254 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 488538007255 S17 interaction site [polypeptide binding]; other site 488538007256 S8 interaction site; other site 488538007257 16S rRNA interaction site [nucleotide binding]; other site 488538007258 streptomycin interaction site [chemical binding]; other site 488538007259 23S rRNA interaction site [nucleotide binding]; other site 488538007260 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 488538007261 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 488538007262 elongation factor G; Reviewed; Region: PRK00007 488538007263 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 488538007264 G1 box; other site 488538007265 putative GEF interaction site [polypeptide binding]; other site 488538007266 GTP/Mg2+ binding site [chemical binding]; other site 488538007267 Switch I region; other site 488538007268 G2 box; other site 488538007269 G3 box; other site 488538007270 Switch II region; other site 488538007271 G4 box; other site 488538007272 G5 box; other site 488538007273 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 488538007274 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 488538007275 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 488538007276 elongation factor Tu; Reviewed; Region: PRK00049 488538007277 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 488538007278 G1 box; other site 488538007279 GEF interaction site [polypeptide binding]; other site 488538007280 GTP/Mg2+ binding site [chemical binding]; other site 488538007281 Switch I region; other site 488538007282 G2 box; other site 488538007283 G3 box; other site 488538007284 Switch II region; other site 488538007285 G4 box; other site 488538007286 G5 box; other site 488538007287 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 488538007288 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 488538007289 Antibiotic Binding Site [chemical binding]; other site 488538007290 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 488538007291 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 488538007292 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 488538007293 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 488538007294 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 488538007295 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 488538007296 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 488538007297 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 488538007298 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 488538007299 putative translocon binding site; other site 488538007300 protein-rRNA interface [nucleotide binding]; other site 488538007301 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 488538007302 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 488538007303 G-X-X-G motif; other site 488538007304 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 488538007305 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 488538007306 23S rRNA interface [nucleotide binding]; other site 488538007307 5S rRNA interface [nucleotide binding]; other site 488538007308 putative antibiotic binding site [chemical binding]; other site 488538007309 L25 interface [polypeptide binding]; other site 488538007310 L27 interface [polypeptide binding]; other site 488538007311 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 488538007312 putative translocon interaction site; other site 488538007313 23S rRNA interface [nucleotide binding]; other site 488538007314 signal recognition particle (SRP54) interaction site; other site 488538007315 L23 interface [polypeptide binding]; other site 488538007316 trigger factor interaction site; other site 488538007317 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 488538007318 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 488538007319 KOW motif; Region: KOW; cl00354 488538007320 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 488538007321 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 488538007322 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 488538007323 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 488538007324 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 488538007325 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 488538007326 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 488538007327 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 488538007328 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 488538007329 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 488538007330 5S rRNA interface [nucleotide binding]; other site 488538007331 23S rRNA interface [nucleotide binding]; other site 488538007332 L5 interface [polypeptide binding]; other site 488538007333 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 488538007334 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 488538007335 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 488538007336 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 488538007337 23S rRNA binding site [nucleotide binding]; other site 488538007338 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 488538007339 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 488538007340 SecY translocase; Region: SecY; pfam00344 488538007341 adenylate kinase; Reviewed; Region: adk; PRK00279 488538007342 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 488538007343 AMP-binding site [chemical binding]; other site 488538007344 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 488538007345 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 488538007346 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 488538007347 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 488538007348 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 488538007349 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 488538007350 alphaNTD homodimer interface [polypeptide binding]; other site 488538007351 alphaNTD - beta interaction site [polypeptide binding]; other site 488538007352 alphaNTD - beta' interaction site [polypeptide binding]; other site 488538007353 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 488538007354 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 488538007355 recombination factor protein RarA; Reviewed; Region: PRK13342 488538007356 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 488538007357 Walker A motif; other site 488538007358 ATP binding site [chemical binding]; other site 488538007359 Walker B motif; other site 488538007360 arginine finger; other site 488538007361 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 488538007362 CrcB-like protein; Region: CRCB; cl09114 488538007363 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 488538007364 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 488538007365 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 488538007366 active site 488538007367 ATP12 chaperone protein; Region: ATP12; cl02228 488538007368 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 488538007369 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; cl16911 488538007370 Cupin domain; Region: Cupin_2; cl09118 488538007371 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 488538007372 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 488538007373 tetramer interface [polypeptide binding]; other site 488538007374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488538007375 catalytic residue [active] 488538007376 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 488538007377 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 488538007378 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 488538007379 catalytic core [active] 488538007380 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 488538007381 LysE type translocator; Region: LysE; cl00565 488538007382 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 488538007383 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 488538007384 putative active site [active] 488538007385 putative metal binding site [ion binding]; other site 488538007386 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 488538007387 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488538007388 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 488538007389 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 488538007390 GAF domain; Region: GAF; cl15785 488538007391 GTP cyclohydrolase I; Provisional; Region: PLN03044 488538007392 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 488538007393 active site 488538007394 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 488538007395 folate binding site [chemical binding]; other site 488538007396 NADP+ binding site [chemical binding]; other site 488538007397 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 488538007398 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 488538007399 active site 488538007400 catalytic tetrad [active] 488538007401 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 488538007402 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488538007403 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 488538007404 N-terminal domain interface [polypeptide binding]; other site 488538007405 dimer interface [polypeptide binding]; other site 488538007406 substrate binding pocket (H-site) [chemical binding]; other site 488538007407 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 488538007408 FMN binding site [chemical binding]; other site 488538007409 active site 488538007410 substrate binding site [chemical binding]; other site 488538007411 catalytic residue [active] 488538007412 Cysteine dioxygenase type I; Region: CDO_I; cl15835 488538007413 Membrane transport protein; Region: Mem_trans; cl09117 488538007414 Cytochrome C'; Region: Cytochrom_C_2; cl01610 488538007415 NIPSNAP; Region: NIPSNAP; pfam07978 488538007416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007417 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 488538007418 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 488538007419 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 488538007420 active site 488538007421 dimer interface [polypeptide binding]; other site 488538007422 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 488538007423 dimer interface [polypeptide binding]; other site 488538007424 active site 488538007425 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 488538007426 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 488538007427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488538007428 catalytic residue [active] 488538007429 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 488538007430 GIY-YIG motif/motif A; other site 488538007431 putative active site [active] 488538007432 putative metal binding site [ion binding]; other site 488538007433 HI0933-like protein; Region: HI0933_like; pfam03486 488538007434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007435 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 488538007436 active site clefts [active] 488538007437 zinc binding site [ion binding]; other site 488538007438 dimer interface [polypeptide binding]; other site 488538007439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488538007440 Helix-turn-helix domains; Region: HTH; cl00088 488538007441 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 488538007442 dimerization interface [polypeptide binding]; other site 488538007443 Nitrogen regulatory protein P-II; Region: P-II; cl00412 488538007444 Nitrogen regulatory protein P-II; Region: P-II; smart00938 488538007445 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 488538007446 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 488538007447 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 488538007448 Walker A/P-loop; other site 488538007449 ATP binding site [chemical binding]; other site 488538007450 Q-loop/lid; other site 488538007451 ABC transporter signature motif; other site 488538007452 Walker B; other site 488538007453 D-loop; other site 488538007454 H-loop/switch region; other site 488538007455 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 488538007456 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 488538007457 TM-ABC transporter signature motif; other site 488538007458 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 488538007459 TM-ABC transporter signature motif; other site 488538007460 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 488538007461 putative ligand binding site [chemical binding]; other site 488538007462 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 488538007463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007464 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 488538007465 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 488538007466 MOFRL family; Region: MOFRL; pfam05161 488538007467 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 488538007468 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 488538007469 tetramer interface [polypeptide binding]; other site 488538007470 active site 488538007471 Mg2+/Mn2+ binding site [ion binding]; other site 488538007472 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488538007473 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 488538007474 non-specific DNA binding site [nucleotide binding]; other site 488538007475 salt bridge; other site 488538007476 sequence-specific DNA binding site [nucleotide binding]; other site 488538007477 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 488538007478 Domain of unknown function (DUF955); Region: DUF955; cl01076 488538007479 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 488538007480 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 488538007481 MgtE intracellular N domain; Region: MgtE_N; cl15244 488538007482 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 488538007483 Divalent cation transporter; Region: MgtE; cl00786 488538007484 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 488538007485 Staphylococcal nuclease homologues; Region: SNc; smart00318 488538007486 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 488538007487 Catalytic site; other site 488538007488 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 488538007489 Major Facilitator Superfamily; Region: MFS_1; pfam07690 488538007490 putative substrate translocation pore; other site 488538007491 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 488538007492 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 488538007493 metal binding triad; other site 488538007494 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 488538007495 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 488538007496 metal binding triad; other site 488538007497 multidrug efflux protein; Reviewed; Region: PRK01766 488538007498 MatE; Region: MatE; cl10513 488538007499 MatE; Region: MatE; cl10513 488538007500 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 488538007501 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; cl16911 488538007502 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 488538007503 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 488538007504 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 488538007505 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 488538007506 active site 488538007507 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 488538007508 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; cl16911 488538007509 GMP synthase; Reviewed; Region: guaA; PRK00074 488538007510 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 488538007511 AMP/PPi binding site [chemical binding]; other site 488538007512 candidate oxyanion hole; other site 488538007513 catalytic triad [active] 488538007514 potential glutamine specificity residues [chemical binding]; other site 488538007515 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 488538007516 ATP Binding subdomain [chemical binding]; other site 488538007517 Ligand Binding sites [chemical binding]; other site 488538007518 Dimerization subdomain; other site 488538007519 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; cd00397 488538007520 active site 488538007521 Int/Topo IB signature motif; other site 488538007522 DNA binding site [nucleotide binding] 488538007523 Cupin domain; Region: Cupin_2; cl09118 488538007524 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 488538007525 potential frameshift: common BLAST hit: gi|209549735|ref|YP_002281652.1| Lysine exporter protein (LYSE/YGGA) 488538007526 LysE type translocator; Region: LysE; cl00565 488538007527 LysE type translocator; Region: LysE; cl00565 488538007528 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 488538007529 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 488538007530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 488538007531 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 488538007532 Trp docking motif [polypeptide binding]; other site 488538007533 active site 488538007534 PQQ-like domain; Region: PQQ_2; pfam13360 488538007535 GTP-binding protein Der; Reviewed; Region: PRK00093 488538007536 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 488538007537 G1 box; other site 488538007538 GTP/Mg2+ binding site [chemical binding]; other site 488538007539 Switch I region; other site 488538007540 G2 box; other site 488538007541 Switch II region; other site 488538007542 G3 box; other site 488538007543 G4 box; other site 488538007544 G5 box; other site 488538007545 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 488538007546 G1 box; other site 488538007547 GTP/Mg2+ binding site [chemical binding]; other site 488538007548 Switch I region; other site 488538007549 G2 box; other site 488538007550 G3 box; other site 488538007551 Switch II region; other site 488538007552 G4 box; other site 488538007553 G5 box; other site 488538007554 N-formylglutamate amidohydrolase; Region: FGase; cl01522 488538007555 EamA-like transporter family; Region: EamA; cl01037 488538007556 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 488538007557 phenol 2-monooxygenase; Provisional; Region: PRK08294 488538007558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007560 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 488538007561 dimer interface [polypeptide binding]; other site 488538007562 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 488538007563 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 488538007564 putative FMN binding site [chemical binding]; other site 488538007565 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 488538007566 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 488538007567 FeS/SAM binding site; other site 488538007568 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 488538007569 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 488538007570 Walker A motif; other site 488538007571 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 488538007572 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 488538007573 dimer interface [polypeptide binding]; other site 488538007574 putative functional site; other site 488538007575 putative MPT binding site; other site 488538007576 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 488538007577 MoaE homodimer interface [polypeptide binding]; other site 488538007578 MoaD interaction [polypeptide binding]; other site 488538007579 active site residues [active] 488538007580 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 488538007581 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 488538007582 S-adenosylmethionine binding site [chemical binding]; other site 488538007583 short chain dehydrogenase; Provisional; Region: PRK06123 488538007584 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 488538007585 NADP binding site [chemical binding]; other site 488538007586 homodimer interface [polypeptide binding]; other site 488538007587 active site 488538007588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 488538007589 Nitronate monooxygenase; Region: NMO; pfam03060 488538007590 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 488538007591 FMN binding site [chemical binding]; other site 488538007592 substrate binding site [chemical binding]; other site 488538007593 putative catalytic residue [active] 488538007594 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 488538007595 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 488538007596 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 488538007597 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 488538007598 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 488538007599 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538007600 Walker A motif; other site 488538007601 ATP binding site [chemical binding]; other site 488538007602 Walker B motif; other site 488538007603 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 488538007604 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 488538007605 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 488538007606 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 488538007607 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 488538007608 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 488538007609 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 488538007610 Sel1 repeat; Region: Sel1; cl02723 488538007611 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 488538007612 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 488538007613 Walker A motif; other site 488538007614 ATP binding site [chemical binding]; other site 488538007615 Walker B motif; other site 488538007616 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 488538007617 anti sigma factor interaction site; other site 488538007618 regulatory phosphorylation site [posttranslational modification]; other site 488538007619 GAF domain; Region: GAF; cl15785 488538007620 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 488538007621 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 488538007622 Protein of unknown function (DUF330); Region: DUF330; cl01135 488538007623 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 488538007624 mce related protein; Region: MCE; pfam02470 488538007625 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 488538007626 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 488538007627 Walker A/P-loop; other site 488538007628 ATP binding site [chemical binding]; other site 488538007629 Q-loop/lid; other site 488538007630 ABC transporter signature motif; other site 488538007631 Walker B; other site 488538007632 D-loop; other site 488538007633 H-loop/switch region; other site 488538007634 Permease; Region: Permease; cl00510 488538007635 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 488538007636 P-loop; other site 488538007637 Magnesium ion binding site [ion binding]; other site 488538007638 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 488538007639 putative substrate translocation pore; other site 488538007640 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 488538007641 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 488538007642 [2Fe-2S] cluster binding site [ion binding]; other site 488538007643 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 488538007644 alpha subunit interface [polypeptide binding]; other site 488538007645 active site 488538007646 substrate binding site [chemical binding]; other site 488538007647 Fe binding site [ion binding]; other site 488538007648 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 488538007649 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 488538007650 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 488538007651 Helix-turn-helix domains; Region: HTH; cl00088 488538007652 AsnC family; Region: AsnC_trans_reg; pfam01037 488538007653 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 488538007654 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 488538007655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488538007656 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 488538007657 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 488538007658 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 488538007659 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442