-- dump date 20140618_184641 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1313172000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1313172000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1313172000003 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 1313172000004 Walker A motif; other site 1313172000005 ATP binding site [chemical binding]; other site 1313172000006 Walker B motif; other site 1313172000007 arginine finger; other site 1313172000008 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 1313172000009 DnaA box-binding interface [nucleotide binding]; other site 1313172000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1313172000011 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 1313172000012 putative DNA binding surface [nucleotide binding]; other site 1313172000013 dimer interface [polypeptide binding]; other site 1313172000014 beta-clamp/clamp loader binding surface; other site 1313172000015 beta-clamp/translesion DNA polymerase binding surface; other site 1313172000016 recombination protein F; Reviewed; Region: recF; PRK00064 1313172000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172000018 Walker A/P-loop; other site 1313172000019 ATP binding site [chemical binding]; other site 1313172000020 Q-loop/lid; other site 1313172000021 ABC transporter signature motif; other site 1313172000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172000023 ABC transporter signature motif; other site 1313172000024 Walker B; other site 1313172000025 D-loop; other site 1313172000026 H-loop/switch region; other site 1313172000027 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1313172000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1313172000029 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 1313172000030 Mg2+ binding site [ion binding]; other site 1313172000031 G-X-G motif; other site 1313172000032 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 1313172000033 anchoring element; other site 1313172000034 dimer interface [polypeptide binding]; other site 1313172000035 ATP binding site [chemical binding]; other site 1313172000036 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 1313172000037 active site 1313172000038 putative metal-binding site [ion binding]; other site 1313172000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1313172000040 DNA gyrase subunit A; Validated; Region: PRK05560 1313172000041 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1313172000042 CAP-like domain; other site 1313172000043 active site 1313172000044 primary dimer interface [polypeptide binding]; other site 1313172000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1313172000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1313172000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1313172000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1313172000049 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 1313172000050 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1313172000051 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172000052 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1313172000053 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1313172000054 MgtE intracellular N domain; Region: MgtE_N; smart00924 1313172000055 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 1313172000056 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1313172000057 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 1313172000058 putative [4Fe-4S] binding site [ion binding]; other site 1313172000059 putative molybdopterin cofactor binding site [chemical binding]; other site 1313172000060 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1313172000061 molybdopterin cofactor binding site; other site 1313172000062 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 1313172000063 catalytic core [active] 1313172000064 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1313172000065 nudix motif; other site 1313172000066 mycothione reductase; Reviewed; Region: PRK07846 1313172000067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172000068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172000069 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1313172000070 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1313172000071 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1313172000072 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 1313172000073 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172000074 catalytic residue [active] 1313172000075 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1313172000076 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172000077 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1313172000078 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172000079 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172000080 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172000081 active site 1313172000082 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172000083 active site 1313172000084 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1313172000085 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1313172000086 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1313172000087 conserved cys residue [active] 1313172000088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172000089 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172000090 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 1313172000091 non-specific DNA binding site [nucleotide binding]; other site 1313172000092 salt bridge; other site 1313172000093 sequence-specific DNA binding site [nucleotide binding]; other site 1313172000094 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1313172000095 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 1313172000096 active site 1313172000097 catalytic triad [active] 1313172000098 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 1313172000099 PA/protease or protease-like domain interface [polypeptide binding]; other site 1313172000100 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1313172000101 catalytic residues [active] 1313172000102 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; cd00531 1313172000103 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1313172000104 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 1313172000105 S-adenosylmethionine binding site [chemical binding]; other site 1313172000106 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 1313172000107 active site 1313172000108 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 1313172000109 intersubunit interface [polypeptide binding]; other site 1313172000110 active site 1313172000111 Zn2+ binding site [ion binding]; other site 1313172000112 Predicted RNA-binding proteins [General function prediction only]; Region: PelA; COG1537 1313172000113 eRF1 domain 3; Region: eRF1_3; pfam03465 1313172000114 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 1313172000115 Ligand Binding Site [chemical binding]; other site 1313172000116 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1313172000117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172000118 DNA-binding site [nucleotide binding]; DNA binding site 1313172000119 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1313172000120 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172000121 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1313172000122 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1313172000123 Walker A/P-loop; other site 1313172000124 ATP binding site [chemical binding]; other site 1313172000125 Q-loop/lid; other site 1313172000126 ABC transporter signature motif; other site 1313172000127 Walker B; other site 1313172000128 D-loop; other site 1313172000129 H-loop/switch region; other site 1313172000130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172000131 Walker A/P-loop; other site 1313172000132 ATP binding site [chemical binding]; other site 1313172000133 Q-loop/lid; other site 1313172000134 ABC transporter signature motif; other site 1313172000135 Walker B; other site 1313172000136 D-loop; other site 1313172000137 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4603 1313172000138 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 1313172000139 TM-ABC transporter signature motif; other site 1313172000140 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1313172000141 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 1313172000142 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 1313172000143 active site 1313172000144 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1313172000145 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1313172000146 adenosine deaminase; Provisional; Region: PRK09358 1313172000147 active site 1313172000148 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172000149 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172000150 active site 1313172000151 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1313172000152 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 1313172000153 Nitroreductase family; Region: Nitroreductase; pfam00881 1313172000154 FMN binding site [chemical binding]; other site 1313172000155 dimer interface [polypeptide binding]; other site 1313172000156 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1313172000157 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1313172000158 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1313172000159 uncharacterized cyanobacterial protein, TIGR03792 family; Region: TIGR03792 1313172000160 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172000161 hypothetical protein; Provisional; Region: PRK06194 1313172000162 classical (c) SDRs; Region: SDR_c; cd05233 1313172000163 NAD(P) binding site [chemical binding]; other site 1313172000164 active site 1313172000165 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172000166 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1313172000167 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1313172000168 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1313172000169 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 1313172000170 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172000171 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172000172 active site 1313172000173 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1313172000174 MarR family; Region: MarR_2; cl17246 1313172000175 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1313172000176 EamA-like transporter family; Region: EamA; pfam00892 1313172000177 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172000178 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000179 MMPL family; Region: MMPL; pfam03176 1313172000180 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 1313172000181 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172000182 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 1313172000183 putative NAD(P) binding site [chemical binding]; other site 1313172000184 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172000185 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 1313172000186 active site 1313172000187 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 1313172000188 Isochorismatase family; Region: Isochorismatase; pfam00857 1313172000189 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1313172000190 catalytic triad [active] 1313172000191 conserved cis-peptide bond; other site 1313172000192 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1313172000193 hydrophobic ligand binding site; other site 1313172000194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172000195 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1313172000196 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 1313172000197 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 1313172000198 active site 1313172000199 Fic family protein [Function unknown]; Region: COG3177 1313172000200 Fic/DOC family; Region: Fic; pfam02661 1313172000201 enoyl-CoA hydratase; Provisional; Region: PRK05995 1313172000202 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 1313172000203 substrate binding site [chemical binding]; other site 1313172000204 oxyanion hole (OAH) forming residues; other site 1313172000205 trimer interface [polypeptide binding]; other site 1313172000206 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1313172000207 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1313172000208 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172000209 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1313172000210 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1313172000211 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1313172000212 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1313172000213 putative active site [active] 1313172000214 catalytic triad [active] 1313172000215 putative dimer interface [polypeptide binding]; other site 1313172000216 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1313172000217 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1313172000218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172000219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000220 WHG domain; Region: WHG; pfam13305 1313172000221 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172000222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172000223 active site 1313172000224 phosphorylation site [posttranslational modification] 1313172000225 intermolecular recognition site; other site 1313172000226 dimerization interface [polypeptide binding]; other site 1313172000227 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 1313172000228 DNA binding site [nucleotide binding] 1313172000229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172000230 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 1313172000231 dimerization interface [polypeptide binding]; other site 1313172000232 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 1313172000233 dimer interface [polypeptide binding]; other site 1313172000234 phosphorylation site [posttranslational modification] 1313172000235 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 1313172000236 ATP binding site [chemical binding]; other site 1313172000237 Mg2+ binding site [ion binding]; other site 1313172000238 G-X-G motif; other site 1313172000239 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172000240 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1313172000241 Walker A/P-loop; other site 1313172000242 ATP binding site [chemical binding]; other site 1313172000243 Q-loop/lid; other site 1313172000244 ABC transporter signature motif; other site 1313172000245 Walker B; other site 1313172000246 D-loop; other site 1313172000247 H-loop/switch region; other site 1313172000248 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1313172000249 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172000250 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 1313172000251 active site 1313172000252 putative substrate binding pocket [chemical binding]; other site 1313172000253 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 1313172000254 enoyl-CoA hydratase; Provisional; Region: PRK06142 1313172000255 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 1313172000256 substrate binding site [chemical binding]; other site 1313172000257 oxyanion hole (OAH) forming residues; other site 1313172000258 trimer interface [polypeptide binding]; other site 1313172000259 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172000260 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 1313172000261 iron-sulfur cluster [ion binding]; other site 1313172000262 [2Fe-2S] cluster binding site [ion binding]; other site 1313172000263 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172000264 Beta propeller domain; Region: Beta_propel; pfam09826 1313172000265 Domain of unknown function (DUF385); Region: DUF385; pfam04075 1313172000266 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1313172000267 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1313172000268 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 1313172000269 isovaleryl-CoA dehydrogenase; Region: PLN02519 1313172000270 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172000271 active site 1313172000272 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1313172000273 MarR family; Region: MarR; pfam01047 1313172000274 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1313172000275 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 1313172000276 dimer interface [polypeptide binding]; other site 1313172000277 active site 1313172000278 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 1313172000279 S-adenosylmethionine binding site [chemical binding]; other site 1313172000280 Predicted transcriptional regulators [Transcription]; Region: COG1695 1313172000281 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1313172000282 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1313172000283 catalytic residues [active] 1313172000284 CGNR zinc finger; Region: zf-CGNR; pfam11706 1313172000285 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1313172000286 DNA-binding site [nucleotide binding]; DNA binding site 1313172000287 RNA-binding motif; other site 1313172000288 oxidoreductase; Provisional; Region: PRK06196 1313172000289 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1313172000290 putative NAD(P) binding site [chemical binding]; other site 1313172000291 active site 1313172000292 Domain of unknown function (DUF389); Region: DUF389; pfam04087 1313172000293 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1313172000294 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1313172000295 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1313172000296 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172000297 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172000298 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 1313172000299 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172000300 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000301 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 1313172000302 active site residue [active] 1313172000303 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172000304 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 1313172000305 putative active site [active] 1313172000306 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1313172000307 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 1313172000308 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172000309 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172000310 TadE-like protein; Region: TadE; pfam07811 1313172000311 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1313172000312 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1313172000313 Walker A motif; other site 1313172000314 ATP binding site [chemical binding]; other site 1313172000315 Walker B motif; other site 1313172000316 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 1313172000317 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1313172000318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172000319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172000320 active site 1313172000321 phosphorylation site [posttranslational modification] 1313172000322 intermolecular recognition site; other site 1313172000323 dimerization interface [polypeptide binding]; other site 1313172000324 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 1313172000325 DNA binding site [nucleotide binding] 1313172000326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172000327 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 1313172000328 dimerization interface [polypeptide binding]; other site 1313172000329 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 1313172000330 dimer interface [polypeptide binding]; other site 1313172000331 phosphorylation site [posttranslational modification] 1313172000332 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 1313172000333 ATP binding site [chemical binding]; other site 1313172000334 Mg2+ binding site [ion binding]; other site 1313172000335 G-X-G motif; other site 1313172000336 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172000337 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172000338 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172000339 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172000340 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172000341 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 1313172000342 Nitronate monooxygenase; Region: NMO; pfam03060 1313172000343 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 1313172000344 FMN binding site [chemical binding]; other site 1313172000345 substrate binding site [chemical binding]; other site 1313172000346 putative catalytic residue [active] 1313172000347 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1313172000348 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1313172000349 NAD binding site [chemical binding]; other site 1313172000350 ligand binding site [chemical binding]; other site 1313172000351 catalytic site [active] 1313172000352 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 1313172000353 active site 1313172000354 catalytic residues [active] 1313172000355 DinB superfamily; Region: DinB_2; pfam12867 1313172000356 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1313172000357 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 1313172000358 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1313172000359 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1313172000360 Walker A/P-loop; other site 1313172000361 ATP binding site [chemical binding]; other site 1313172000362 Q-loop/lid; other site 1313172000363 ABC transporter signature motif; other site 1313172000364 Walker B; other site 1313172000365 D-loop; other site 1313172000366 H-loop/switch region; other site 1313172000367 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1313172000368 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1313172000369 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 1313172000370 ligand binding site [chemical binding]; other site 1313172000371 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172000372 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 1313172000373 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 1313172000374 TM-ABC transporter signature motif; other site 1313172000375 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172000376 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 1313172000377 TM-ABC transporter signature motif; other site 1313172000378 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1313172000379 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 1313172000380 active site 1313172000381 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1313172000382 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1313172000383 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1313172000384 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1313172000385 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172000386 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1313172000387 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1313172000388 active site 1313172000389 catalytic triad [active] 1313172000390 dimer interface [polypeptide binding]; other site 1313172000391 allantoate amidohydrolase; Reviewed; Region: PRK12893 1313172000392 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1313172000393 active site 1313172000394 metal binding site [ion binding]; metal-binding site 1313172000395 dimer interface [polypeptide binding]; other site 1313172000396 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 1313172000397 catalytic core [active] 1313172000398 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172000399 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 1313172000400 active site 1313172000401 putative substrate binding pocket [chemical binding]; other site 1313172000402 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 1313172000403 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 1313172000404 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172000405 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1313172000406 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1313172000407 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1313172000408 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1313172000409 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172000410 dimer interface [polypeptide binding]; other site 1313172000411 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1313172000412 hydrophobic ligand binding site; other site 1313172000413 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 1313172000414 Amidinotransferase; Region: Amidinotransf; pfam02274 1313172000415 ornithine cyclodeaminase; Validated; Region: PRK07589 1313172000416 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1313172000417 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1313172000418 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 1313172000419 putative DNA binding site [nucleotide binding]; other site 1313172000420 putative Zn2+ binding site [ion binding]; other site 1313172000421 AsnC family; Region: AsnC_trans_reg; pfam01037 1313172000422 Proline dehydrogenase; Region: Pro_dh; cl03282 1313172000423 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1313172000424 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1313172000425 NAD(P) binding site [chemical binding]; other site 1313172000426 catalytic residues [active] 1313172000427 PAS domain; Region: PAS_9; pfam13426 1313172000428 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 1313172000429 putative active site [active] 1313172000430 heme pocket [chemical binding]; other site 1313172000431 Helix-turn-helix domain; Region: HTH_18; pfam12833 1313172000432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172000433 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172000434 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 1313172000435 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172000436 putative substrate translocation pore; other site 1313172000437 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172000438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1313172000439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172000440 NAD(P) binding site [chemical binding]; other site 1313172000441 active site 1313172000442 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172000443 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172000444 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 1313172000445 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 1313172000446 dimer interface [polypeptide binding]; other site 1313172000447 active site 1313172000448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172000449 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; cl17904 1313172000450 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172000451 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172000452 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1313172000453 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 1313172000454 molybdopterin cofactor binding site; other site 1313172000455 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 1313172000456 molybdopterin cofactor binding site; other site 1313172000457 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172000458 classical (c) SDRs; Region: SDR_c; cd05233 1313172000459 NAD(P) binding site [chemical binding]; other site 1313172000460 active site 1313172000461 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172000462 Cytochrome P450; Region: p450; cl12078 1313172000463 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172000464 Cytochrome P450; Region: p450; cl12078 1313172000465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000466 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1313172000467 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172000468 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 1313172000469 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172000470 putative metal binding site [ion binding]; other site 1313172000471 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1313172000472 CoenzymeA binding site [chemical binding]; other site 1313172000473 subunit interaction site [polypeptide binding]; other site 1313172000474 PHB binding site; other site 1313172000475 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1313172000476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172000477 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1313172000478 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1313172000479 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 1313172000480 Walker A motif; other site 1313172000481 ATP binding site [chemical binding]; other site 1313172000482 Walker B motif; other site 1313172000483 arginine finger; other site 1313172000484 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1313172000485 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 1313172000486 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1313172000487 inhibitor-cofactor binding pocket; inhibition site 1313172000488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172000489 catalytic residue [active] 1313172000490 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1313172000491 MarR family; Region: MarR_2; pfam12802 1313172000492 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1313172000493 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 1313172000494 dimer interface [polypeptide binding]; other site 1313172000495 active site 1313172000496 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1313172000497 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1313172000498 glutamine binding [chemical binding]; other site 1313172000499 catalytic triad [active] 1313172000500 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172000501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172000502 active site 1313172000503 phosphorylation site [posttranslational modification] 1313172000504 intermolecular recognition site; other site 1313172000505 dimerization interface [polypeptide binding]; other site 1313172000506 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 1313172000507 DNA binding residues [nucleotide binding] 1313172000508 dimerization interface [polypeptide binding]; other site 1313172000509 Putative sensor; Region: Sensor; pfam13796 1313172000510 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1313172000511 Histidine kinase; Region: HisKA_3; pfam07730 1313172000512 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 1313172000513 ATP binding site [chemical binding]; other site 1313172000514 Mg2+ binding site [ion binding]; other site 1313172000515 G-X-G motif; other site 1313172000516 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172000517 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172000518 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172000519 Walker A/P-loop; other site 1313172000520 ATP binding site [chemical binding]; other site 1313172000521 Q-loop/lid; other site 1313172000522 ABC transporter signature motif; other site 1313172000523 Walker B; other site 1313172000524 D-loop; other site 1313172000525 H-loop/switch region; other site 1313172000526 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1313172000527 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1313172000528 active site 1313172000529 ATP binding site [chemical binding]; other site 1313172000530 substrate binding site [chemical binding]; other site 1313172000531 activation loop (A-loop); other site 1313172000532 PASTA domain; Region: PASTA; smart00740 1313172000533 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1313172000534 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1313172000535 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1313172000536 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1313172000537 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1313172000538 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1313172000539 Protein phosphatase 2C; Region: PP2C; pfam00481 1313172000540 active site 1313172000541 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1313172000542 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1313172000543 phosphopeptide binding site; other site 1313172000544 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 1313172000545 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1313172000546 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1313172000547 phosphopeptide binding site; other site 1313172000548 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1313172000549 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1313172000550 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1313172000551 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172000552 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1313172000553 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1313172000554 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 1313172000555 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1313172000556 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 1313172000557 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1313172000558 P-loop; other site 1313172000559 Magnesium ion binding site [ion binding]; other site 1313172000560 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1313172000561 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1313172000562 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172000563 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172000564 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172000565 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 1313172000566 active site 1313172000567 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 1313172000568 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172000569 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000570 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 1313172000571 putative heme binding site [chemical binding]; other site 1313172000572 putative substrate binding site [chemical binding]; other site 1313172000573 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1313172000574 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1313172000575 active site 1313172000576 HIGH motif; other site 1313172000577 nucleotide binding site [chemical binding]; other site 1313172000578 active site 1313172000579 KMSKS motif; other site 1313172000580 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1313172000581 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172000582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1313172000583 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1313172000584 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1313172000585 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1313172000586 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1313172000587 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1313172000588 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1313172000589 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 1313172000590 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 1313172000591 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 1313172000592 AAA domain; Region: AAA_22; pfam13401 1313172000593 Walker A motif; other site 1313172000594 ATP binding site [chemical binding]; other site 1313172000595 Walker B motif; other site 1313172000596 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1313172000597 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1313172000598 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 1313172000599 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1313172000600 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1313172000601 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1313172000602 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; cd03467 1313172000603 iron-sulfur cluster [ion binding]; other site 1313172000604 [2Fe-2S] cluster binding site [ion binding]; other site 1313172000605 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1313172000606 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1313172000607 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172000608 Walker A/P-loop; other site 1313172000609 ATP binding site [chemical binding]; other site 1313172000610 Q-loop/lid; other site 1313172000611 ABC transporter signature motif; other site 1313172000612 Walker B; other site 1313172000613 D-loop; other site 1313172000614 H-loop/switch region; other site 1313172000615 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 1313172000616 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172000617 catalytic residues [active] 1313172000618 prephenate dehydratase; Provisional; Region: PRK11898 1313172000619 Prephenate dehydratase; Region: PDT; pfam00800 1313172000620 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 1313172000621 putative L-Phe binding site [chemical binding]; other site 1313172000622 short chain dehydrogenase; Validated; Region: PRK06182 1313172000623 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1313172000624 NADP binding site [chemical binding]; other site 1313172000625 active site 1313172000626 steroid binding site; other site 1313172000627 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1313172000628 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1313172000629 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1313172000630 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172000631 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1313172000632 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1313172000633 catalytic residue [active] 1313172000634 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172000635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172000636 metal binding site [ion binding]; metal-binding site 1313172000637 active site 1313172000638 I-site; other site 1313172000639 aminotransferase; Validated; Region: PRK07777 1313172000640 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 1313172000641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172000642 homodimer interface [polypeptide binding]; other site 1313172000643 catalytic residue [active] 1313172000644 C-N hydrolase family amidase; Provisional; Region: PRK10438 1313172000645 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1313172000646 active site 1313172000647 catalytic triad [active] 1313172000648 dimer interface [polypeptide binding]; other site 1313172000649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172000650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1313172000651 Coenzyme A binding pocket [chemical binding]; other site 1313172000652 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172000653 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172000654 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1313172000655 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1313172000656 metal ion-dependent adhesion site (MIDAS); other site 1313172000657 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 1313172000658 PA14 domain; Region: PA14; cl08459 1313172000659 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1313172000660 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172000661 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1313172000662 Walker A/P-loop; other site 1313172000663 ATP binding site [chemical binding]; other site 1313172000664 Q-loop/lid; other site 1313172000665 ABC transporter signature motif; other site 1313172000666 Walker B; other site 1313172000667 D-loop; other site 1313172000668 H-loop/switch region; other site 1313172000669 TAP-like protein; Region: Abhydrolase_4; pfam08386 1313172000670 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 1313172000671 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1313172000672 G1 box; other site 1313172000673 GTP/Mg2+ binding site [chemical binding]; other site 1313172000674 G2 box; other site 1313172000675 Switch I region; other site 1313172000676 G3 box; other site 1313172000677 Switch II region; other site 1313172000678 G4 box; other site 1313172000679 G5 box; other site 1313172000680 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 1313172000681 nucleoside/Zn binding site; other site 1313172000682 dimer interface [polypeptide binding]; other site 1313172000683 catalytic motif [active] 1313172000684 5'-3' exonuclease, N-terminal resolvase-like domain; Region: 5_3_exonuc_N; pfam02739 1313172000685 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1313172000686 active site 1313172000687 metal binding site 1 [ion binding]; metal-binding site 1313172000688 putative 5' ssDNA interaction site; other site 1313172000689 metal binding site 3; metal-binding site 1313172000690 metal binding site 2 [ion binding]; metal-binding site 1313172000691 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1313172000692 putative DNA binding site [nucleotide binding]; other site 1313172000693 putative metal binding site [ion binding]; other site 1313172000694 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1313172000695 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1313172000696 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1313172000697 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1313172000698 Walker A motif; other site 1313172000699 ATP binding site [chemical binding]; other site 1313172000700 Walker B motif; other site 1313172000701 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1313172000702 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1313172000703 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1313172000704 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 1313172000705 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1313172000706 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1313172000707 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1313172000708 Walker A motif; other site 1313172000709 ATP binding site [chemical binding]; other site 1313172000710 Walker B motif; other site 1313172000711 Protein of unknown function (DUF429); Region: DUF429; cl12046 1313172000712 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1313172000713 classical (c) SDRs; Region: SDR_c; cd05233 1313172000714 NAD(P) binding site [chemical binding]; other site 1313172000715 active site 1313172000716 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1313172000717 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 1313172000718 S-adenosylmethionine binding site [chemical binding]; other site 1313172000719 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1313172000720 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1313172000721 NAD binding site [chemical binding]; other site 1313172000722 ligand binding site [chemical binding]; other site 1313172000723 catalytic site [active] 1313172000724 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 1313172000725 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1313172000726 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 1313172000727 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 1313172000728 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1313172000729 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1313172000730 acyl-CoA synthetase; Validated; Region: PRK07788 1313172000731 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172000732 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172000733 acyl-activating enzyme (AAE) consensus motif; other site 1313172000734 AMP binding site [chemical binding]; other site 1313172000735 active site 1313172000736 CoA binding site [chemical binding]; other site 1313172000737 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1313172000738 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1313172000739 NAD(P) binding site [chemical binding]; other site 1313172000740 substrate binding site [chemical binding]; other site 1313172000741 dimer interface [polypeptide binding]; other site 1313172000742 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 1313172000743 TPP-binding site [chemical binding]; other site 1313172000744 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1313172000745 PYR/PP interface [polypeptide binding]; other site 1313172000746 dimer interface [polypeptide binding]; other site 1313172000747 TPP binding site [chemical binding]; other site 1313172000748 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1313172000749 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172000750 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172000751 active site 1313172000752 H+ Antiporter protein; Region: 2A0121; TIGR00900 1313172000753 H+ Antiporter protein; Region: 2A0121; TIGR00900 1313172000754 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 1313172000755 putative DNA binding site [nucleotide binding]; other site 1313172000756 putative Zn2+ binding site [ion binding]; other site 1313172000757 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172000758 classical (c) SDRs; Region: SDR_c; cd05233 1313172000759 NAD(P) binding site [chemical binding]; other site 1313172000760 active site 1313172000761 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1313172000762 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1313172000763 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172000764 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172000765 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1313172000766 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172000767 active site 1313172000768 substrate binding site [chemical binding]; other site 1313172000769 ATP binding site [chemical binding]; other site 1313172000770 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1313172000771 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 1313172000772 active site 1313172000773 dimerization interface [polypeptide binding]; other site 1313172000774 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1313172000775 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1313172000776 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1313172000777 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1313172000778 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1313172000779 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1313172000780 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1313172000781 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1313172000782 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1313172000783 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 1313172000784 dimer interface [polypeptide binding]; other site 1313172000785 conserved gate region; other site 1313172000786 putative PBP binding loops; other site 1313172000787 ABC-ATPase subunit interface; other site 1313172000788 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172000789 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 1313172000790 dimer interface [polypeptide binding]; other site 1313172000791 conserved gate region; other site 1313172000792 putative PBP binding loops; other site 1313172000793 ABC-ATPase subunit interface; other site 1313172000794 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1313172000795 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1313172000796 Walker A/P-loop; other site 1313172000797 ATP binding site [chemical binding]; other site 1313172000798 Q-loop/lid; other site 1313172000799 ABC transporter signature motif; other site 1313172000800 Walker B; other site 1313172000801 D-loop; other site 1313172000802 H-loop/switch region; other site 1313172000803 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1313172000804 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1313172000805 substrate binding site [chemical binding]; other site 1313172000806 ATP binding site [chemical binding]; other site 1313172000807 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 1313172000808 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172000809 putative NAD(P) binding site [chemical binding]; other site 1313172000810 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172000811 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 1313172000812 [2Fe-2S] cluster binding site [ion binding]; other site 1313172000813 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1313172000814 alpha subunit interface [polypeptide binding]; other site 1313172000815 active site 1313172000816 substrate binding site [chemical binding]; other site 1313172000817 Fe binding site [ion binding]; other site 1313172000818 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172000819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000820 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1313172000821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172000822 NAD(P) binding site [chemical binding]; other site 1313172000823 active site 1313172000824 ferrochelatase; Reviewed; Region: hemH; PRK00035 1313172000825 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 1313172000826 C-terminal domain interface [polypeptide binding]; other site 1313172000827 active site 1313172000828 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 1313172000829 active site 1313172000830 N-terminal domain interface [polypeptide binding]; other site 1313172000831 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1313172000832 PGAP1-like protein; Region: PGAP1; pfam07819 1313172000833 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1313172000834 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1313172000835 active site 1313172000836 metal binding site [ion binding]; metal-binding site 1313172000837 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1313172000838 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 1313172000839 S-adenosylmethionine binding site [chemical binding]; other site 1313172000840 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1313172000841 CoenzymeA binding site [chemical binding]; other site 1313172000842 subunit interaction site [polypeptide binding]; other site 1313172000843 PHB binding site; other site 1313172000844 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1313172000845 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 1313172000846 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1313172000847 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1313172000848 Domain of unknown function DUF59; Region: DUF59; cl00941 1313172000849 Phenylacetic acid degradation B; Region: PaaB; cl01371 1313172000850 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1313172000851 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 1313172000852 aspartate kinase; Reviewed; Region: PRK06635 1313172000853 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 1313172000854 putative nucleotide binding site [chemical binding]; other site 1313172000855 putative catalytic residues [active] 1313172000856 putative Mg ion binding site [ion binding]; other site 1313172000857 putative aspartate binding site [chemical binding]; other site 1313172000858 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 1313172000859 putative allosteric regulatory site; other site 1313172000860 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 1313172000861 putative allosteric regulatory residue; other site 1313172000862 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1313172000863 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 1313172000864 kynureninase; Region: kynureninase; TIGR01814 1313172000865 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172000866 catalytic residue [active] 1313172000867 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1313172000868 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1313172000869 active site 1313172000870 DNA binding site [nucleotide binding] 1313172000871 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1313172000872 DNA binding site [nucleotide binding] 1313172000873 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172000874 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172000875 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172000876 classical (c) SDRs; Region: SDR_c; cd05233 1313172000877 NAD(P) binding site [chemical binding]; other site 1313172000878 active site 1313172000879 helicase 45; Provisional; Region: PTZ00424 1313172000880 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 1313172000881 ATP binding site [chemical binding]; other site 1313172000882 Mg++ binding site [ion binding]; other site 1313172000883 motif III; other site 1313172000884 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 1313172000885 nucleotide binding region [chemical binding]; other site 1313172000886 ATP-binding site [chemical binding]; other site 1313172000887 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1313172000888 DNA-binding site [nucleotide binding]; DNA binding site 1313172000889 RNA-binding motif; other site 1313172000890 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1313172000891 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 1313172000892 active site 1313172000893 catalytic site [active] 1313172000894 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 1313172000895 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1313172000896 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1313172000897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1313172000898 Proteins of 100 residues with WXG; Region: WXG100; cl02005 1313172000899 HTH domain; Region: HTH_22; pfam13309 1313172000900 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1313172000901 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 1313172000902 deazaflavin-dependent oxidoreductase, nitroreductase family; Region: hi_GC_TIGR00026 1313172000903 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172000904 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1313172000905 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 1313172000906 pteridine reductase; Provisional; Region: PRK09135 1313172000907 classical (c) SDRs; Region: SDR_c; cd05233 1313172000908 NAD(P) binding site [chemical binding]; other site 1313172000909 active site 1313172000910 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1313172000911 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000912 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1313172000913 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172000914 pantothenate kinase; Provisional; Region: PRK05439 1313172000915 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1313172000916 ATP-binding site [chemical binding]; other site 1313172000917 CoA-binding site [chemical binding]; other site 1313172000918 Mg2+-binding site [ion binding]; other site 1313172000919 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1313172000920 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 1313172000921 S-adenosylmethionine binding site [chemical binding]; other site 1313172000922 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1313172000923 Cytochrome c; Region: Cytochrom_C; pfam00034 1313172000924 methionine aminopeptidase; Provisional; Region: PRK12318 1313172000925 SEC-C motif; Region: SEC-C; pfam02810 1313172000926 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 1313172000927 active site 1313172000928 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 1313172000929 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1313172000930 Walker A motif; other site 1313172000931 ATP binding site [chemical binding]; other site 1313172000932 Walker B motif; other site 1313172000933 thymidylate kinase; Validated; Region: tmk; PRK00698 1313172000934 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 1313172000935 TMP-binding site; other site 1313172000936 ATP-binding site [chemical binding]; other site 1313172000937 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1313172000938 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 1313172000939 active site 1313172000940 interdomain interaction site; other site 1313172000941 putative metal-binding site [ion binding]; other site 1313172000942 nucleotide binding site [chemical binding]; other site 1313172000943 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1313172000944 domain I; other site 1313172000945 phosphate binding site [ion binding]; other site 1313172000946 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 1313172000947 domain II; other site 1313172000948 domain III; other site 1313172000949 nucleotide binding site [chemical binding]; other site 1313172000950 DNA binding groove [nucleotide binding] 1313172000951 catalytic site [active] 1313172000952 domain IV; other site 1313172000953 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1313172000954 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1313172000955 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1313172000956 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1313172000957 ribosome small subunit-dependent GTPase A; Region: TIGR00157 1313172000958 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1313172000959 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1313172000960 GTP/Mg2+ binding site [chemical binding]; other site 1313172000961 G4 box; other site 1313172000962 G5 box; other site 1313172000963 G1 box; other site 1313172000964 Switch I region; other site 1313172000965 G2 box; other site 1313172000966 G3 box; other site 1313172000967 Switch II region; other site 1313172000968 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1313172000969 Protein of unknown function (DUF952); Region: DUF952; pfam06108 1313172000970 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1313172000971 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1313172000972 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172000973 classical (c) SDRs; Region: SDR_c; cd05233 1313172000974 NAD(P) binding site [chemical binding]; other site 1313172000975 active site 1313172000976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172000977 Cupin domain; Region: Cupin_2; cl17218 1313172000978 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1313172000979 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1313172000980 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1313172000981 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1313172000982 Walker A motif; other site 1313172000983 hexamer interface [polypeptide binding]; other site 1313172000984 ATP binding site [chemical binding]; other site 1313172000985 Walker B motif; other site 1313172000986 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1313172000987 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1313172000988 catalytic residue [active] 1313172000989 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1313172000990 catalytic residues [active] 1313172000991 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172000992 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172000993 peroxiredoxin; Region: AhpC; TIGR03137 1313172000994 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1313172000995 dimer interface [polypeptide binding]; other site 1313172000996 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1313172000997 catalytic triad [active] 1313172000998 peroxidatic and resolving cysteines [active] 1313172000999 Uncharacterized conserved protein [Function unknown]; Region: COG3542 1313172001000 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172001001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172001002 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1313172001003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172001004 Helix-turn-helix domain; Region: HTH_18; pfam12833 1313172001005 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172001006 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 1313172001007 potassium/proton antiporter; Reviewed; Region: PRK05326 1313172001008 TrkA-C domain; Region: TrkA_C; pfam02080 1313172001009 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172001010 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172001011 active site 1313172001012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172001013 Coenzyme A binding pocket [chemical binding]; other site 1313172001014 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1313172001015 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1313172001016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172001017 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1313172001018 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 1313172001019 DNA binding residues [nucleotide binding] 1313172001020 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1313172001021 Bax inhibitor 1 like; Region: BaxI_1; cl17691 1313172001022 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172001023 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172001024 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 1313172001025 Fic/DOC family; Region: Fic; pfam02661 1313172001026 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1313172001027 dinuclear metal binding motif [ion binding]; other site 1313172001028 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1313172001029 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 1313172001030 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172001031 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1313172001032 ABC1 family; Region: ABC1; pfam03109 1313172001033 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1313172001034 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1313172001035 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1313172001036 substrate binding pocket [chemical binding]; other site 1313172001037 chain length determination region; other site 1313172001038 substrate-Mg2+ binding site; other site 1313172001039 catalytic residues [active] 1313172001040 aspartate-rich region 1; other site 1313172001041 active site lid residues [active] 1313172001042 aspartate-rich region 2; other site 1313172001043 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1313172001044 TrkA-N domain; Region: TrkA_N; pfam02254 1313172001045 TrkA-C domain; Region: TrkA_C; pfam02080 1313172001046 TrkA-N domain; Region: TrkA_N; pfam02254 1313172001047 TrkA-C domain; Region: TrkA_C; pfam02080 1313172001048 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1313172001049 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1313172001050 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1313172001051 heme-binding site [chemical binding]; other site 1313172001052 Rrf2 family protein; Region: rrf2_super; TIGR00738 1313172001053 Transcriptional regulator; Region: Rrf2; pfam02082 1313172001054 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1313172001055 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1313172001056 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1313172001057 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1313172001058 interchain domain interface [polypeptide binding]; other site 1313172001059 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 1313172001060 heme bL binding site [chemical binding]; other site 1313172001061 intrachain domain interface; other site 1313172001062 heme bH binding site [chemical binding]; other site 1313172001063 Qo binding site; other site 1313172001064 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1313172001065 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 1313172001066 iron-sulfur cluster [ion binding]; other site 1313172001067 [2Fe-2S] cluster binding site [ion binding]; other site 1313172001068 Cytochrome c; Region: Cytochrom_C; pfam00034 1313172001069 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1313172001070 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1313172001071 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1313172001072 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1313172001073 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1313172001074 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 1313172001075 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1313172001076 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1313172001077 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1313172001078 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 1313172001079 putative dimer interface [polypeptide binding]; other site 1313172001080 [2Fe-2S] cluster binding site [ion binding]; other site 1313172001081 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1313172001082 SLBB domain; Region: SLBB; pfam10531 1313172001083 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1313172001084 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 1313172001085 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 1313172001086 catalytic loop [active] 1313172001087 iron binding site [ion binding]; other site 1313172001088 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1313172001089 MopB_NADH-Q-OR-NuoG2: The NuoG/Nad11/75-kDa subunit (second domain) of the NADH-quinone oxidoreductase (NADH-Q-OR)/respiratory complex I/NADH dehydrogenase-1 (NDH-1). The NADH-Q-OR is the first energy-transducting complex in the respiratory chains of...; Region: MopB_NADH-Q-OR-NuoG2; cd02768 1313172001090 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1313172001091 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1313172001092 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1313172001093 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1313172001094 4Fe-4S binding domain; Region: Fer4; pfam00037 1313172001095 4Fe-4S binding domain; Region: Fer4; pfam00037 1313172001096 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1313172001097 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1313172001098 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1313172001099 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1313172001100 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1313172001101 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172001102 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1313172001103 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172001104 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1313172001105 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172001106 Nuclease-related domain; Region: NERD; pfam08378 1313172001107 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 1313172001108 active site 1313172001109 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1313172001110 putative hydrophobic ligand binding site [chemical binding]; other site 1313172001111 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172001112 hydrophobic ligand binding site; other site 1313172001113 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 1313172001114 dimerization interface [polypeptide binding]; other site 1313172001115 putative DNA binding site [nucleotide binding]; other site 1313172001116 putative Zn2+ binding site [ion binding]; other site 1313172001117 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172001118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172001119 metal binding site [ion binding]; metal-binding site 1313172001120 active site 1313172001121 I-site; other site 1313172001122 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 1313172001123 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 1313172001124 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1313172001125 RNase_H superfamily; Region: RNase_H_2; pfam13482 1313172001126 AAA domain; Region: AAA_30; pfam13604 1313172001127 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1313172001128 AAA domain; Region: AAA_12; pfam13087 1313172001129 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 1313172001130 catalytic residues [active] 1313172001131 Predicted membrane protein [Function unknown]; Region: COG4270 1313172001132 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172001133 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 1313172001134 active site 1313172001135 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172001136 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1313172001137 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172001138 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1313172001139 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1313172001140 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172001141 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1313172001142 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172001143 putative active site [active] 1313172001144 putative substrate binding site [chemical binding]; other site 1313172001145 ATP binding site [chemical binding]; other site 1313172001146 Alkylmercury lyase; Region: MerB; pfam03243 1313172001147 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 1313172001148 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1313172001149 active site 1313172001150 DNA binding site [nucleotide binding] 1313172001151 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 1313172001152 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1313172001153 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1313172001154 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1313172001155 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172001156 Predicted acetyltransferase [General function prediction only]; Region: COG3393 1313172001157 SnoaL-like domain; Region: SnoaL_2; pfam12680 1313172001158 SnoaL-like domain; Region: SnoaL_2; pfam12680 1313172001159 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 1313172001160 active site 1313172001161 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 1313172001162 active site 1313172001163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172001164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001165 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172001166 Cytochrome P450; Region: p450; cl12078 1313172001167 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1313172001168 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1313172001169 DNA binding residues [nucleotide binding] 1313172001170 dimer interface [polypeptide binding]; other site 1313172001171 [2Fe-2S] cluster binding site [ion binding]; other site 1313172001172 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 1313172001173 iron-sulfur cluster [ion binding]; other site 1313172001174 [2Fe-2S] cluster binding site [ion binding]; other site 1313172001175 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 1313172001176 phosphopeptide binding site; other site 1313172001177 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1313172001178 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172001179 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 1313172001180 DNA binding residues [nucleotide binding] 1313172001181 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1313172001182 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 1313172001183 putative dimer interface [polypeptide binding]; other site 1313172001184 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 1313172001185 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172001186 active site 1313172001187 metal binding site [ion binding]; metal-binding site 1313172001188 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1313172001189 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1313172001190 Walker A/P-loop; other site 1313172001191 ATP binding site [chemical binding]; other site 1313172001192 Q-loop/lid; other site 1313172001193 ABC transporter signature motif; other site 1313172001194 Walker B; other site 1313172001195 D-loop; other site 1313172001196 H-loop/switch region; other site 1313172001197 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1313172001198 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172001199 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 1313172001200 ligand binding site [chemical binding]; other site 1313172001201 flexible hinge region; other site 1313172001202 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1313172001203 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1313172001204 substrate binding site; other site 1313172001205 dimer interface; other site 1313172001206 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 1313172001207 homotrimer interaction site [polypeptide binding]; other site 1313172001208 zinc binding site [ion binding]; other site 1313172001209 CDP-binding sites; other site 1313172001210 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1313172001211 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1313172001212 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1313172001213 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 1313172001214 active site 1313172001215 catalytic site [active] 1313172001216 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1313172001217 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172001218 classical (c) SDRs; Region: SDR_c; cd05233 1313172001219 NAD(P) binding site [chemical binding]; other site 1313172001220 active site 1313172001221 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1313172001222 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1313172001223 classical (c) SDRs; Region: SDR_c; cd05233 1313172001224 NAD(P) binding site [chemical binding]; other site 1313172001225 active site 1313172001226 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172001227 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172001228 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 1313172001229 PAS domain; Region: PAS_9; pfam13426 1313172001230 putative active site [active] 1313172001231 heme pocket [chemical binding]; other site 1313172001232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172001233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172001234 metal binding site [ion binding]; metal-binding site 1313172001235 active site 1313172001236 I-site; other site 1313172001237 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1313172001238 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1313172001239 NAD(P) binding site [chemical binding]; other site 1313172001240 catalytic residues [active] 1313172001241 Spondin_N; Region: Spond_N; pfam06468 1313172001242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172001243 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 1313172001244 ATP binding site [chemical binding]; other site 1313172001245 Mg2+ binding site [ion binding]; other site 1313172001246 G-X-G motif; other site 1313172001247 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 1313172001248 Protein of unknown function (DUF742); Region: DUF742; pfam05331 1313172001249 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1313172001250 G2 box; other site 1313172001251 Switch I region; other site 1313172001252 G3 box; other site 1313172001253 Switch II region; other site 1313172001254 GTP/Mg2+ binding site [chemical binding]; other site 1313172001255 G4 box; other site 1313172001256 G5 box; other site 1313172001257 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1313172001258 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1313172001259 ATP-binding site [chemical binding]; other site 1313172001260 Sugar specificity; other site 1313172001261 Pyrimidine base specificity; other site 1313172001262 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 1313172001263 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1313172001264 Ubiquitin-like proteins; Region: UBQ; cl00155 1313172001265 charged pocket; other site 1313172001266 hydrophobic patch; other site 1313172001267 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172001268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172001269 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 1313172001270 DNA binding residues [nucleotide binding] 1313172001271 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 1313172001272 amphipathic channel; other site 1313172001273 Asn-Pro-Ala signature motifs; other site 1313172001274 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172001275 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1313172001276 Chlorite dismutase; Region: Chlor_dismutase; cl01280 1313172001277 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 1313172001278 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 1313172001279 ligand binding site [chemical binding]; other site 1313172001280 Putative zinc-finger; Region: zf-HC2; pfam13490 1313172001281 PII uridylyl-transferase; Provisional; Region: PRK03381 1313172001282 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1313172001283 metal binding triad; other site 1313172001284 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1313172001285 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172001286 Zn2+ binding site [ion binding]; other site 1313172001287 Mg2+ binding site [ion binding]; other site 1313172001288 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1313172001289 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 1313172001290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001291 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 1313172001292 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 1313172001293 kynureninase; Region: kynureninase; TIGR01814 1313172001294 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172001295 catalytic residue [active] 1313172001296 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1313172001297 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1313172001298 nudix motif; other site 1313172001299 PAC2 family; Region: PAC2; pfam09754 1313172001300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172001301 Coenzyme A binding pocket [chemical binding]; other site 1313172001302 HEAT repeats; Region: HEAT_2; pfam13646 1313172001303 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1313172001304 PDZ domain; Region: PDZ_2; pfam13180 1313172001305 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1313172001306 DivIVA domain; Region: DivI1A_domain; TIGR03544 1313172001307 DivIVA protein; Region: DivIVA; pfam05103 1313172001308 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 1313172001309 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1313172001310 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1313172001311 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 1313172001312 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1313172001313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172001314 catalytic residue [active] 1313172001315 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 1313172001316 active site 1313172001317 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1313172001318 EamA-like transporter family; Region: EamA; pfam00892 1313172001319 EamA-like transporter family; Region: EamA; pfam00892 1313172001320 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1313172001321 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1313172001322 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172001323 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172001324 intersubunit interface [polypeptide binding]; other site 1313172001325 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1313172001326 putative active site [active] 1313172001327 homotetrameric interface [polypeptide binding]; other site 1313172001328 metal binding site [ion binding]; metal-binding site 1313172001329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172001330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001331 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1313172001332 substrate binding site [chemical binding]; other site 1313172001333 dimer interface [polypeptide binding]; other site 1313172001334 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172001335 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1313172001336 acyl-activating enzyme (AAE) consensus motif; other site 1313172001337 AMP binding site [chemical binding]; other site 1313172001338 active site 1313172001339 CoA binding site [chemical binding]; other site 1313172001340 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1313172001341 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 1313172001342 putative NAD(P) binding site [chemical binding]; other site 1313172001343 catalytic Zn binding site [ion binding]; other site 1313172001344 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172001345 classical (c) SDRs; Region: SDR_c; cd05233 1313172001346 NAD(P) binding site [chemical binding]; other site 1313172001347 active site 1313172001348 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1313172001349 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172001350 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1313172001351 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1313172001352 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172001353 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1313172001354 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172001355 short chain dehydrogenase; Provisional; Region: PRK06197 1313172001356 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1313172001357 putative NAD(P) binding site [chemical binding]; other site 1313172001358 active site 1313172001359 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172001360 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001361 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1313172001362 MarR family; Region: MarR_2; pfam12802 1313172001363 Pirin; Region: Pirin; pfam02678 1313172001364 Pirin-related protein [General function prediction only]; Region: COG1741 1313172001365 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1313172001366 DoxX-like family; Region: DoxX_2; pfam13564 1313172001367 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1313172001368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172001369 Walker A/P-loop; other site 1313172001370 ATP binding site [chemical binding]; other site 1313172001371 Q-loop/lid; other site 1313172001372 ABC transporter signature motif; other site 1313172001373 Walker B; other site 1313172001374 D-loop; other site 1313172001375 H-loop/switch region; other site 1313172001376 Histidine kinase; Region: HisKA_3; pfam07730 1313172001377 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1313172001378 ATP binding site [chemical binding]; other site 1313172001379 Mg2+ binding site [ion binding]; other site 1313172001380 G-X-G motif; other site 1313172001381 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172001382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172001383 active site 1313172001384 phosphorylation site [posttranslational modification] 1313172001385 intermolecular recognition site; other site 1313172001386 dimerization interface [polypeptide binding]; other site 1313172001387 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 1313172001388 DNA binding residues [nucleotide binding] 1313172001389 dimerization interface [polypeptide binding]; other site 1313172001390 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172001391 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172001392 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1313172001393 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1313172001394 heme binding site [chemical binding]; other site 1313172001395 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1313172001396 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1313172001397 metal binding site 2 [ion binding]; metal-binding site 1313172001398 putative DNA binding helix; other site 1313172001399 metal binding site 1 [ion binding]; metal-binding site 1313172001400 dimer interface [polypeptide binding]; other site 1313172001401 structural Zn2+ binding site [ion binding]; other site 1313172001402 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1313172001403 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1313172001404 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172001405 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 1313172001406 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172001407 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 1313172001408 putative NAD(P) binding site [chemical binding]; other site 1313172001409 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172001410 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 1313172001411 active site 1313172001412 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 1313172001413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172001414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001415 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172001416 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172001417 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 1313172001418 TM-ABC transporter signature motif; other site 1313172001419 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172001420 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 1313172001421 TM-ABC transporter signature motif; other site 1313172001422 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1313172001423 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1313172001424 Walker A/P-loop; other site 1313172001425 ATP binding site [chemical binding]; other site 1313172001426 Q-loop/lid; other site 1313172001427 ABC transporter signature motif; other site 1313172001428 Walker B; other site 1313172001429 D-loop; other site 1313172001430 H-loop/switch region; other site 1313172001431 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1313172001432 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1313172001433 Walker A/P-loop; other site 1313172001434 ATP binding site [chemical binding]; other site 1313172001435 Q-loop/lid; other site 1313172001436 ABC transporter signature motif; other site 1313172001437 Walker B; other site 1313172001438 D-loop; other site 1313172001439 H-loop/switch region; other site 1313172001440 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1313172001441 putative metal binding residues [ion binding]; other site 1313172001442 signature motif; other site 1313172001443 dimer interface [polypeptide binding]; other site 1313172001444 active site 1313172001445 polyP binding site; other site 1313172001446 substrate binding site [chemical binding]; other site 1313172001447 acceptor-phosphate pocket; other site 1313172001448 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 1313172001449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172001450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172001451 active site 1313172001452 phosphorylation site [posttranslational modification] 1313172001453 intermolecular recognition site; other site 1313172001454 dimerization interface [polypeptide binding]; other site 1313172001455 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 1313172001456 DNA binding site [nucleotide binding] 1313172001457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172001458 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 1313172001459 dimerization interface [polypeptide binding]; other site 1313172001460 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 1313172001461 dimer interface [polypeptide binding]; other site 1313172001462 phosphorylation site [posttranslational modification] 1313172001463 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 1313172001464 ATP binding site [chemical binding]; other site 1313172001465 Mg2+ binding site [ion binding]; other site 1313172001466 G-X-G motif; other site 1313172001467 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172001468 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172001469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172001470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001471 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172001472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1313172001473 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1313172001474 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1313172001475 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 1313172001476 active site 1313172001477 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1313172001478 cyclase homology domain; Region: CHD; cd07302 1313172001479 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1313172001480 nucleotidyl binding site; other site 1313172001481 metal binding site [ion binding]; metal-binding site 1313172001482 dimer interface [polypeptide binding]; other site 1313172001483 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1313172001484 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1313172001485 CoenzymeA binding site [chemical binding]; other site 1313172001486 subunit interaction site [polypeptide binding]; other site 1313172001487 PHB binding site; other site 1313172001488 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1313172001489 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 1313172001490 putative DNA binding site [nucleotide binding]; other site 1313172001491 putative Zn2+ binding site [ion binding]; other site 1313172001492 AsnC family; Region: AsnC_trans_reg; pfam01037 1313172001493 Domain of unknown function (DUF389); Region: DUF389; cl00781 1313172001494 ApbE family; Region: ApbE; pfam02424 1313172001495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1313172001496 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1313172001497 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1313172001498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172001499 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1313172001500 NAD(P) binding site [chemical binding]; other site 1313172001501 active site 1313172001502 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 1313172001503 Predicted flavoprotein [General function prediction only]; Region: COG0431 1313172001504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1313172001505 MarR family; Region: MarR_2; cl17246 1313172001506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172001507 short chain dehydrogenase; Provisional; Region: PRK06138 1313172001508 NAD(P) binding site [chemical binding]; other site 1313172001509 active site 1313172001510 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1313172001511 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172001512 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1313172001513 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1313172001514 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172001515 putative NAD(P) binding site [chemical binding]; other site 1313172001516 Predicted transcriptional regulators [Transcription]; Region: COG1733 1313172001517 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1313172001518 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172001519 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 1313172001520 PRC-barrel domain; Region: PRC; pfam05239 1313172001521 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1313172001522 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1313172001523 putative ADP-ribose binding site [chemical binding]; other site 1313172001524 putative active site [active] 1313172001525 Nuclease-related domain; Region: NERD; pfam08378 1313172001526 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 1313172001527 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172001528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172001529 metal binding site [ion binding]; metal-binding site 1313172001530 active site 1313172001531 I-site; other site 1313172001532 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1313172001533 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1313172001534 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1313172001535 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1313172001536 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1313172001537 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1313172001538 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1313172001539 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1313172001540 Walker A/P-loop; other site 1313172001541 ATP binding site [chemical binding]; other site 1313172001542 Q-loop/lid; other site 1313172001543 ABC transporter signature motif; other site 1313172001544 Walker B; other site 1313172001545 D-loop; other site 1313172001546 H-loop/switch region; other site 1313172001547 NMT1/THI5 like; Region: NMT1; pfam09084 1313172001548 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172001549 Sulfatase; Region: Sulfatase; pfam00884 1313172001550 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 1313172001551 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 1313172001552 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 1313172001553 [2Fe-2S] cluster binding site [ion binding]; other site 1313172001554 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1313172001555 putative alpha subunit interface [polypeptide binding]; other site 1313172001556 putative active site [active] 1313172001557 putative substrate binding site [chemical binding]; other site 1313172001558 Fe binding site [ion binding]; other site 1313172001559 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1313172001560 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 1313172001561 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1313172001562 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 1313172001563 non-specific DNA binding site [nucleotide binding]; other site 1313172001564 salt bridge; other site 1313172001565 sequence-specific DNA binding site [nucleotide binding]; other site 1313172001566 Cupin domain; Region: Cupin_2; pfam07883 1313172001567 oxidoreductase; Region: PLN02485 1313172001568 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172001569 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172001570 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1313172001571 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 1313172001572 tetramer interface [polypeptide binding]; other site 1313172001573 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1313172001574 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172001575 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172001576 Cytochrome P450; Region: p450; cl12078 1313172001577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172001578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172001579 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172001580 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172001581 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1313172001582 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1313172001583 Walker A/P-loop; other site 1313172001584 ATP binding site [chemical binding]; other site 1313172001585 Q-loop/lid; other site 1313172001586 ABC transporter signature motif; other site 1313172001587 Walker B; other site 1313172001588 D-loop; other site 1313172001589 H-loop/switch region; other site 1313172001590 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172001591 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172001592 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172001593 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 1313172001594 TM-ABC transporter signature motif; other site 1313172001595 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172001596 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 1313172001597 TM-ABC transporter signature motif; other site 1313172001598 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1313172001599 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1313172001600 acyl-activating enzyme (AAE) consensus motif; other site 1313172001601 putative AMP binding site [chemical binding]; other site 1313172001602 putative active site [active] 1313172001603 putative CoA binding site [chemical binding]; other site 1313172001604 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1313172001605 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1313172001606 Walker A/P-loop; other site 1313172001607 ATP binding site [chemical binding]; other site 1313172001608 Q-loop/lid; other site 1313172001609 ABC transporter signature motif; other site 1313172001610 Walker B; other site 1313172001611 D-loop; other site 1313172001612 H-loop/switch region; other site 1313172001613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172001614 NAD(P) binding site [chemical binding]; other site 1313172001615 active site 1313172001616 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1313172001617 active site 1313172001618 substrate binding site [chemical binding]; other site 1313172001619 ATP binding site [chemical binding]; other site 1313172001620 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172001621 amphi-Trp domain; Region: amphi-Trp; TIGR04354 1313172001622 Fasciclin domain; Region: Fasciclin; pfam02469 1313172001623 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172001624 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1313172001625 Walker A/P-loop; other site 1313172001626 ATP binding site [chemical binding]; other site 1313172001627 Q-loop/lid; other site 1313172001628 ABC transporter signature motif; other site 1313172001629 Walker B; other site 1313172001630 D-loop; other site 1313172001631 H-loop/switch region; other site 1313172001632 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1313172001633 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1313172001634 CsbD-like; Region: CsbD; cl17424 1313172001635 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 1313172001636 active site 1313172001637 catalytic motif [active] 1313172001638 Zn binding site [ion binding]; other site 1313172001639 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 1313172001640 FAD binding site [chemical binding]; other site 1313172001641 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 1313172001642 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1313172001643 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1313172001644 Protein of unknown function DUF58; Region: DUF58; pfam01882 1313172001645 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172001646 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 1313172001647 Walker A motif; other site 1313172001648 ATP binding site [chemical binding]; other site 1313172001649 Walker B motif; other site 1313172001650 arginine finger; other site 1313172001651 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1313172001652 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1313172001653 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172001654 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172001655 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1313172001656 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 1313172001657 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; cd00531 1313172001658 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1313172001659 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1313172001660 SnoaL-like domain; Region: SnoaL_2; pfam12680 1313172001661 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1313172001662 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 1313172001663 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1313172001664 putative di-iron ligands [ion binding]; other site 1313172001665 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 1313172001666 PaaX-like protein; Region: PaaX; pfam07848 1313172001667 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1313172001668 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1313172001669 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1313172001670 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1313172001671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1313172001672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172001673 Coenzyme A binding pocket [chemical binding]; other site 1313172001674 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172001675 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172001676 Predicted transcriptional regulators [Transcription]; Region: COG1695 1313172001677 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1313172001678 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 1313172001679 active site 1313172001680 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 1313172001681 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 1313172001682 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172001683 Isochorismatase family; Region: Isochorismatase; pfam00857 1313172001684 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1313172001685 catalytic triad [active] 1313172001686 conserved cis-peptide bond; other site 1313172001687 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1313172001688 Amidinotransferase; Region: Amidinotransf; pfam02274 1313172001689 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1313172001690 hypothetical protein; Provisional; Region: PRK10621 1313172001691 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1313172001692 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1313172001693 alpha-gamma subunit interface [polypeptide binding]; other site 1313172001694 beta-gamma subunit interface [polypeptide binding]; other site 1313172001695 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1313172001696 gamma-beta subunit interface [polypeptide binding]; other site 1313172001697 alpha-beta subunit interface [polypeptide binding]; other site 1313172001698 urease subunit alpha; Reviewed; Region: ureC; PRK13206 1313172001699 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1313172001700 subunit interactions [polypeptide binding]; other site 1313172001701 active site 1313172001702 flap region; other site 1313172001703 UreF; Region: UreF; pfam01730 1313172001704 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172001705 UreD urease accessory protein; Region: UreD; cl00530 1313172001706 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172001707 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1313172001708 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1313172001709 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1313172001710 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1313172001711 metal ion-dependent adhesion site (MIDAS); other site 1313172001712 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1313172001713 Interdomain contacts; other site 1313172001714 Cytokine receptor motif; other site 1313172001715 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1313172001716 Interdomain contacts; other site 1313172001717 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1313172001718 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172001719 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172001720 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172001721 acyl-activating enzyme (AAE) consensus motif; other site 1313172001722 putative AMP binding site [chemical binding]; other site 1313172001723 putative active site [active] 1313172001724 putative CoA binding site [chemical binding]; other site 1313172001725 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1313172001726 CrcB-like protein; Region: CRCB; pfam02537 1313172001727 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1313172001728 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1313172001729 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1313172001730 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1313172001731 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 1313172001732 dimerization interface [polypeptide binding]; other site 1313172001733 putative DNA binding site [nucleotide binding]; other site 1313172001734 putative Zn2+ binding site [ion binding]; other site 1313172001735 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1313172001736 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1313172001737 active site 1313172001738 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1313172001739 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 1313172001740 putative DNA binding site [nucleotide binding]; other site 1313172001741 putative Zn2+ binding site [ion binding]; other site 1313172001742 AsnC family; Region: AsnC_trans_reg; pfam01037 1313172001743 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1313172001744 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 1313172001745 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172001746 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172001747 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 1313172001748 active site 1313172001749 putative substrate binding pocket [chemical binding]; other site 1313172001750 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 1313172001751 amidase; Provisional; Region: PRK07487 1313172001752 Amidase; Region: Amidase; cl11426 1313172001753 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1313172001754 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 1313172001755 S-adenosylmethionine binding site [chemical binding]; other site 1313172001756 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1313172001757 active site 1313172001758 catalytic residues [active] 1313172001759 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1313172001760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172001761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172001762 metal binding site [ion binding]; metal-binding site 1313172001763 active site 1313172001764 I-site; other site 1313172001765 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172001766 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172001767 active site 1313172001768 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1313172001769 catalytic triad [active] 1313172001770 dimer interface [polypeptide binding]; other site 1313172001771 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172001772 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1313172001773 substrate binding site [chemical binding]; other site 1313172001774 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172001775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172001776 active site 1313172001777 phosphorylation site [posttranslational modification] 1313172001778 intermolecular recognition site; other site 1313172001779 dimerization interface [polypeptide binding]; other site 1313172001780 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 1313172001781 DNA binding site [nucleotide binding] 1313172001782 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172001783 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 1313172001784 dimerization interface [polypeptide binding]; other site 1313172001785 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 1313172001786 dimer interface [polypeptide binding]; other site 1313172001787 phosphorylation site [posttranslational modification] 1313172001788 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 1313172001789 ATP binding site [chemical binding]; other site 1313172001790 Mg2+ binding site [ion binding]; other site 1313172001791 G-X-G motif; other site 1313172001792 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 1313172001793 Predicted membrane protein [Function unknown]; Region: COG2364 1313172001794 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1313172001795 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172001796 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1313172001797 dinuclear metal binding motif [ion binding]; other site 1313172001798 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1313172001799 Predicted deacylase [General function prediction only]; Region: COG3608 1313172001800 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1313172001801 putative active site [active] 1313172001802 Zn binding site [ion binding]; other site 1313172001803 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1313172001804 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172001805 TrkA-C domain; Region: TrkA_C; pfam02080 1313172001806 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1313172001807 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 1313172001808 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1313172001809 active site 1313172001810 trimer interface [polypeptide binding]; other site 1313172001811 dimer interface [polypeptide binding]; other site 1313172001812 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1313172001813 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1313172001814 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 1313172001815 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172001816 active site 1313172001817 metal binding site [ion binding]; metal-binding site 1313172001818 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1313172001819 haloalkane dehalogenase; Provisional; Region: PRK03592 1313172001820 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1313172001821 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 1313172001822 ATP binding site [chemical binding]; other site 1313172001823 Mg++ binding site [ion binding]; other site 1313172001824 motif III; other site 1313172001825 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 1313172001826 nucleotide binding region [chemical binding]; other site 1313172001827 ATP-binding site [chemical binding]; other site 1313172001828 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1313172001829 RNA binding site [nucleotide binding]; other site 1313172001830 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1313172001831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172001832 Coenzyme A binding pocket [chemical binding]; other site 1313172001833 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172001834 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172001835 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172001836 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1313172001837 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1313172001838 phosphopeptide binding site; other site 1313172001839 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1313172001840 cyclase homology domain; Region: CHD; cd07302 1313172001841 nucleotidyl binding site; other site 1313172001842 metal binding site [ion binding]; metal-binding site 1313172001843 dimer interface [polypeptide binding]; other site 1313172001844 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1313172001845 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1313172001846 active site 1313172001847 ATP binding site [chemical binding]; other site 1313172001848 substrate binding site [chemical binding]; other site 1313172001849 activation loop (A-loop); other site 1313172001850 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1313172001851 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 1313172001852 purine monophosphate binding site [chemical binding]; other site 1313172001853 dimer interface [polypeptide binding]; other site 1313172001854 putative catalytic residues [active] 1313172001855 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1313172001856 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1313172001857 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 1313172001858 FAD binding site [chemical binding]; other site 1313172001859 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1313172001860 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172001861 active site 1313172001862 catalytic triad [active] 1313172001863 oxyanion hole [active] 1313172001864 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1313172001865 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172001866 active site 1313172001867 catalytic triad [active] 1313172001868 oxyanion hole [active] 1313172001869 malate dehydrogenase; Provisional; Region: PRK05442 1313172001870 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1313172001871 NAD(P) binding site [chemical binding]; other site 1313172001872 dimer interface [polypeptide binding]; other site 1313172001873 malate binding site [chemical binding]; other site 1313172001874 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172001875 active site 1313172001876 catalytic triad [active] 1313172001877 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 1313172001878 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1313172001879 putative substrate translocation pore; other site 1313172001880 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1313172001881 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1313172001882 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1313172001883 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 1313172001884 putative DNA binding site [nucleotide binding]; other site 1313172001885 catalytic residue [active] 1313172001886 putative H2TH interface [polypeptide binding]; other site 1313172001887 putative catalytic residues [active] 1313172001888 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1313172001889 SCP-2 sterol transfer family; Region: SCP2; cl01225 1313172001890 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 1313172001891 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172001892 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 1313172001893 DNA binding residues [nucleotide binding] 1313172001894 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1313172001895 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1313172001896 active site 1313172001897 catalytic site [active] 1313172001898 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 1313172001899 AAA ATPase domain; Region: AAA_16; pfam13191 1313172001900 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1313172001901 CHAT domain; Region: CHAT; cl17868 1313172001902 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172001903 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 1313172001904 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 1313172001905 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1313172001906 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1313172001907 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 1313172001908 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1313172001909 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1313172001910 putative Iron-sulfur protein interface [polypeptide binding]; other site 1313172001911 proximal heme binding site [chemical binding]; other site 1313172001912 distal heme binding site [chemical binding]; other site 1313172001913 putative dimer interface [polypeptide binding]; other site 1313172001914 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1313172001915 L-aspartate oxidase; Provisional; Region: PRK06175 1313172001916 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1313172001917 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1313172001918 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1313172001919 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 1313172001920 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172001921 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172001922 Calx-beta domain; Region: Calx-beta; cl02522 1313172001923 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1313172001924 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1313172001925 Glucanosyltransferase; Region: Glyco_hydro_72; pfam03198 1313172001926 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 1313172001927 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172001928 TPR repeat; Region: TPR_11; pfam13414 1313172001929 Tetratricopeptide repeat; Region: TPR_2; pfam07719 1313172001930 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1313172001931 cyclase homology domain; Region: CHD; cd07302 1313172001932 nucleotidyl binding site; other site 1313172001933 metal binding site [ion binding]; metal-binding site 1313172001934 dimer interface [polypeptide binding]; other site 1313172001935 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172001936 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 1313172001937 dimer interface [polypeptide binding]; other site 1313172001938 conserved gate region; other site 1313172001939 putative PBP binding loops; other site 1313172001940 ABC-ATPase subunit interface; other site 1313172001941 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1313172001942 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1313172001943 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1313172001944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172001945 Walker A/P-loop; other site 1313172001946 ATP binding site [chemical binding]; other site 1313172001947 Q-loop/lid; other site 1313172001948 ABC transporter signature motif; other site 1313172001949 Walker B; other site 1313172001950 D-loop; other site 1313172001951 H-loop/switch region; other site 1313172001952 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 1313172001953 dimer interface [polypeptide binding]; other site 1313172001954 conserved gate region; other site 1313172001955 ABC-ATPase subunit interface; other site 1313172001956 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1313172001957 Interdomain contacts; other site 1313172001958 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 1313172001959 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1313172001960 metal ion-dependent adhesion site (MIDAS); other site 1313172001961 Transcription factor WhiB; Region: Whib; pfam02467 1313172001962 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 1313172001963 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1313172001964 Amidohydrolase; Region: Amidohydro_2; pfam04909 1313172001965 Transcription factor WhiB; Region: Whib; pfam02467 1313172001966 polyphosphate kinase; Provisional; Region: PRK05443 1313172001967 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1313172001968 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1313172001969 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1313172001970 putative active site [active] 1313172001971 catalytic site [active] 1313172001972 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1313172001973 putative domain interface [polypeptide binding]; other site 1313172001974 putative active site [active] 1313172001975 catalytic site [active] 1313172001976 PBP superfamily domain; Region: PBP_like_2; cl17296 1313172001977 PBP superfamily domain; Region: PBP_like_2; cl17296 1313172001978 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1313172001979 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 1313172001980 dimer interface [polypeptide binding]; other site 1313172001981 conserved gate region; other site 1313172001982 putative PBP binding loops; other site 1313172001983 ABC-ATPase subunit interface; other site 1313172001984 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1313172001985 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 1313172001986 dimer interface [polypeptide binding]; other site 1313172001987 conserved gate region; other site 1313172001988 putative PBP binding loops; other site 1313172001989 ABC-ATPase subunit interface; other site 1313172001990 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1313172001991 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1313172001992 Walker A/P-loop; other site 1313172001993 ATP binding site [chemical binding]; other site 1313172001994 Q-loop/lid; other site 1313172001995 ABC transporter signature motif; other site 1313172001996 Walker B; other site 1313172001997 D-loop; other site 1313172001998 H-loop/switch region; other site 1313172001999 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1313172002000 PhoU domain; Region: PhoU; pfam01895 1313172002001 PhoU domain; Region: PhoU; pfam01895 1313172002002 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 1313172002003 dimer interface [polypeptide binding]; other site 1313172002004 phosphorylation site [posttranslational modification] 1313172002005 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 1313172002006 ATP binding site [chemical binding]; other site 1313172002007 Mg2+ binding site [ion binding]; other site 1313172002008 G-X-G motif; other site 1313172002009 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172002010 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172002011 active site 1313172002012 phosphorylation site [posttranslational modification] 1313172002013 intermolecular recognition site; other site 1313172002014 dimerization interface [polypeptide binding]; other site 1313172002015 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 1313172002016 DNA binding site [nucleotide binding] 1313172002017 PhoU domain; Region: PhoU; pfam01895 1313172002018 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1313172002019 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1313172002020 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1313172002021 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172002022 catalytic residue [active] 1313172002023 H+ Antiporter protein; Region: 2A0121; TIGR00900 1313172002024 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 1313172002025 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 1313172002026 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 1313172002027 oligomerization interface [polypeptide binding]; other site 1313172002028 active site 1313172002029 metal binding site [ion binding]; metal-binding site 1313172002030 von Willebrand factor type D domain; Region: VWD; cl02516 1313172002031 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1313172002032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172002033 Coenzyme A binding pocket [chemical binding]; other site 1313172002034 elongation factor Tu; Reviewed; Region: PRK00049 1313172002035 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1313172002036 G1 box; other site 1313172002037 GEF interaction site [polypeptide binding]; other site 1313172002038 GTP/Mg2+ binding site [chemical binding]; other site 1313172002039 Switch I region; other site 1313172002040 G2 box; other site 1313172002041 G3 box; other site 1313172002042 Switch II region; other site 1313172002043 G4 box; other site 1313172002044 G5 box; other site 1313172002045 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 1313172002046 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 1313172002047 Antibiotic Binding Site [chemical binding]; other site 1313172002048 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1313172002049 preprotein translocase, SecE subunit, bacterial; Region: secE_bact; TIGR00964 1313172002050 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1313172002051 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1313172002052 putative homodimer interface [polypeptide binding]; other site 1313172002053 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1313172002054 heterodimer interface [polypeptide binding]; other site 1313172002055 homodimer interface [polypeptide binding]; other site 1313172002056 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1313172002057 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 1313172002058 putative thiostrepton binding site; other site 1313172002059 23S rRNA interface [nucleotide binding]; other site 1313172002060 L7/L12 interface [polypeptide binding]; other site 1313172002061 L25 interface [polypeptide binding]; other site 1313172002062 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 1313172002063 mRNA/rRNA interface [nucleotide binding]; other site 1313172002064 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1313172002065 Predicted ATPase [General function prediction only]; Region: COG3899 1313172002066 AAA ATPase domain; Region: AAA_16; pfam13191 1313172002067 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 1313172002068 23S rRNA interface [nucleotide binding]; other site 1313172002069 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1313172002070 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 1313172002071 core dimer interface [polypeptide binding]; other site 1313172002072 peripheral dimer interface [polypeptide binding]; other site 1313172002073 L10 interface [polypeptide binding]; other site 1313172002074 L11 interface [polypeptide binding]; other site 1313172002075 putative EF-Tu interaction site [polypeptide binding]; other site 1313172002076 putative EF-G interaction site [polypeptide binding]; other site 1313172002077 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1313172002078 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1313172002079 ligand binding site [chemical binding]; other site 1313172002080 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1313172002081 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1313172002082 ligand binding site [chemical binding]; other site 1313172002083 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1313172002084 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1313172002085 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1313172002086 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1313172002087 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1313172002088 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 1313172002089 RPB1 interaction site [polypeptide binding]; other site 1313172002090 RPB10 interaction site [polypeptide binding]; other site 1313172002091 RPB11 interaction site [polypeptide binding]; other site 1313172002092 RPB3 interaction site [polypeptide binding]; other site 1313172002093 RPB12 interaction site [polypeptide binding]; other site 1313172002094 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1313172002095 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1313172002096 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1313172002097 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1313172002098 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1313172002099 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1313172002100 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1313172002101 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 1313172002102 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1313172002103 DNA binding site [nucleotide binding] 1313172002104 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1313172002105 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1313172002106 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172002107 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 1313172002108 DNA binding residues [nucleotide binding] 1313172002109 dimerization interface [polypeptide binding]; other site 1313172002110 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 1313172002111 PAS domain; Region: PAS_9; pfam13426 1313172002112 putative active site [active] 1313172002113 heme pocket [chemical binding]; other site 1313172002114 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1313172002115 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172002116 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 1313172002117 S17 interaction site [polypeptide binding]; other site 1313172002118 S8 interaction site; other site 1313172002119 16S rRNA interaction site [nucleotide binding]; other site 1313172002120 streptomycin interaction site [chemical binding]; other site 1313172002121 23S rRNA interaction site [nucleotide binding]; other site 1313172002122 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1313172002123 30S ribosomal protein S7; Validated; Region: PRK05302 1313172002124 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1313172002125 DNA binding site [nucleotide binding] 1313172002126 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172002127 Predicted ATPase [General function prediction only]; Region: COG3899 1313172002128 AAA ATPase domain; Region: AAA_16; pfam13191 1313172002129 FOG: CBS domain [General function prediction only]; Region: COG0517 1313172002130 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 1313172002131 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1313172002132 conserved cys residue [active] 1313172002133 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1313172002134 elongation factor G; Reviewed; Region: PRK00007 1313172002135 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1313172002136 G1 box; other site 1313172002137 putative GEF interaction site [polypeptide binding]; other site 1313172002138 GTP/Mg2+ binding site [chemical binding]; other site 1313172002139 Switch I region; other site 1313172002140 G2 box; other site 1313172002141 G3 box; other site 1313172002142 Switch II region; other site 1313172002143 G4 box; other site 1313172002144 G5 box; other site 1313172002145 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 1313172002146 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 1313172002147 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 1313172002148 elongation factor Tu; Reviewed; Region: PRK00049 1313172002149 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1313172002150 G1 box; other site 1313172002151 GEF interaction site [polypeptide binding]; other site 1313172002152 GTP/Mg2+ binding site [chemical binding]; other site 1313172002153 Switch I region; other site 1313172002154 G2 box; other site 1313172002155 G3 box; other site 1313172002156 Switch II region; other site 1313172002157 G4 box; other site 1313172002158 G5 box; other site 1313172002159 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 1313172002160 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 1313172002161 Antibiotic Binding Site [chemical binding]; other site 1313172002162 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1313172002163 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1313172002164 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 1313172002165 protein binding site [polypeptide binding]; other site 1313172002166 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172002167 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 1313172002168 S-adenosylmethionine binding site [chemical binding]; other site 1313172002169 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1313172002170 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1313172002171 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1313172002172 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1313172002173 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1313172002174 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1313172002175 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1313172002176 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 1313172002177 putative translocon binding site; other site 1313172002178 protein-rRNA interface [nucleotide binding]; other site 1313172002179 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1313172002180 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1313172002181 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 1313172002182 G-X-X-G motif; other site 1313172002183 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1313172002184 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 1313172002185 23S rRNA interface [nucleotide binding]; other site 1313172002186 5S rRNA interface [nucleotide binding]; other site 1313172002187 putative antibiotic binding site [chemical binding]; other site 1313172002188 L25 interface [polypeptide binding]; other site 1313172002189 L27 interface [polypeptide binding]; other site 1313172002190 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 1313172002191 23S rRNA interface [nucleotide binding]; other site 1313172002192 putative translocon interaction site; other site 1313172002193 signal recognition particle (SRP54) interaction site; other site 1313172002194 L23 interface [polypeptide binding]; other site 1313172002195 trigger factor interaction site; other site 1313172002196 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1313172002197 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1313172002198 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1313172002199 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1313172002200 RNA binding site [nucleotide binding]; other site 1313172002201 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1313172002202 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1313172002203 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1313172002204 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1313172002205 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1313172002206 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1313172002207 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1313172002208 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1313172002209 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 1313172002210 5S rRNA interface [nucleotide binding]; other site 1313172002211 L27 interface [polypeptide binding]; other site 1313172002212 23S rRNA interface [nucleotide binding]; other site 1313172002213 L5 interface [polypeptide binding]; other site 1313172002214 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 1313172002215 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1313172002216 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1313172002217 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 1313172002218 23S rRNA binding site [nucleotide binding]; other site 1313172002219 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1313172002220 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1313172002221 SecY translocase; Region: SecY; pfam00344 1313172002222 adenylate kinase; Reviewed; Region: adk; PRK00279 1313172002223 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 1313172002224 AMP-binding site [chemical binding]; other site 1313172002225 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1313172002226 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1313172002227 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172002228 classical (c) SDRs; Region: SDR_c; cd05233 1313172002229 NAD(P) binding site [chemical binding]; other site 1313172002230 active site 1313172002231 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 1313172002232 E3 interaction surface; other site 1313172002233 lipoyl attachment site [posttranslational modification]; other site 1313172002234 e3 binding domain; Region: E3_binding; pfam02817 1313172002235 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 1313172002236 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1313172002237 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1313172002238 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1313172002239 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1313172002240 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 1313172002241 alpha subunit interface [polypeptide binding]; other site 1313172002242 TPP binding site [chemical binding]; other site 1313172002243 heterodimer interface [polypeptide binding]; other site 1313172002244 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1313172002245 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1313172002246 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 1313172002247 tetramer interface [polypeptide binding]; other site 1313172002248 TPP-binding site [chemical binding]; other site 1313172002249 heterodimer interface [polypeptide binding]; other site 1313172002250 phosphorylation loop region [posttranslational modification] 1313172002251 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1313172002252 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1313172002253 classical (c) SDRs; Region: SDR_c; cd05233 1313172002254 NAD(P) binding site [chemical binding]; other site 1313172002255 active site 1313172002256 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172002257 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172002258 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 1313172002259 TM-ABC transporter signature motif; other site 1313172002260 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 1313172002261 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172002262 TM-ABC transporter signature motif; other site 1313172002263 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1313172002264 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1313172002265 Walker A/P-loop; other site 1313172002266 ATP binding site [chemical binding]; other site 1313172002267 Q-loop/lid; other site 1313172002268 ABC transporter signature motif; other site 1313172002269 Walker B; other site 1313172002270 D-loop; other site 1313172002271 H-loop/switch region; other site 1313172002272 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1313172002273 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1313172002274 Walker A/P-loop; other site 1313172002275 ATP binding site [chemical binding]; other site 1313172002276 Q-loop/lid; other site 1313172002277 ABC transporter signature motif; other site 1313172002278 Walker B; other site 1313172002279 D-loop; other site 1313172002280 H-loop/switch region; other site 1313172002281 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 1313172002282 TM-ABC transporter signature motif; other site 1313172002283 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172002284 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 1313172002285 TM-ABC transporter signature motif; other site 1313172002286 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172002287 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172002288 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1313172002289 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1313172002290 NAD(P) binding site [chemical binding]; other site 1313172002291 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172002292 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 1313172002293 [2Fe-2S] cluster binding site [ion binding]; other site 1313172002294 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 1313172002295 putative alpha subunit interface [polypeptide binding]; other site 1313172002296 putative active site [active] 1313172002297 putative substrate binding site [chemical binding]; other site 1313172002298 Fe binding site [ion binding]; other site 1313172002299 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172002300 FMN binding site [chemical binding]; other site 1313172002301 dimer interface [polypeptide binding]; other site 1313172002302 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172002303 Cytochrome P450; Region: p450; cl12078 1313172002304 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 1313172002305 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1313172002306 short chain dehydrogenase; Provisional; Region: PRK08303 1313172002307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172002308 NAD(P) binding site [chemical binding]; other site 1313172002309 active site 1313172002310 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 1313172002311 rRNA binding site [nucleotide binding]; other site 1313172002312 predicted 30S ribosome binding site; other site 1313172002313 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1313172002314 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1313172002315 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1313172002316 30S ribosomal protein S11; Validated; Region: PRK05309 1313172002317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1313172002318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1313172002319 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 1313172002320 RNA binding surface [nucleotide binding]; other site 1313172002321 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1313172002322 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1313172002323 alphaNTD - beta interaction site [polypeptide binding]; other site 1313172002324 alphaNTD homodimer interface [polypeptide binding]; other site 1313172002325 alphaNTD - beta' interaction site [polypeptide binding]; other site 1313172002326 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1313172002327 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1313172002328 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1313172002329 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1313172002330 dimerization interface 3.5A [polypeptide binding]; other site 1313172002331 active site 1313172002332 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172002333 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172002334 acyl-activating enzyme (AAE) consensus motif; other site 1313172002335 AMP binding site [chemical binding]; other site 1313172002336 active site 1313172002337 CoA binding site [chemical binding]; other site 1313172002338 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 1313172002339 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1313172002340 putative active site [active] 1313172002341 heme pocket [chemical binding]; other site 1313172002342 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 1313172002343 putative active site [active] 1313172002344 heme pocket [chemical binding]; other site 1313172002345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172002346 metal binding site [ion binding]; metal-binding site 1313172002347 active site 1313172002348 I-site; other site 1313172002349 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172002350 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 1313172002351 23S rRNA interface [nucleotide binding]; other site 1313172002352 L3 interface [polypeptide binding]; other site 1313172002353 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1313172002354 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 1313172002355 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1313172002356 active site 1313172002357 substrate binding site [chemical binding]; other site 1313172002358 metal binding site [ion binding]; metal-binding site 1313172002359 Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]; Region: GlmS; COG0449 1313172002360 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 1313172002361 active site 1313172002362 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 1313172002363 dimer interface [polypeptide binding]; other site 1313172002364 active site 1313172002365 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1313172002366 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1313172002367 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1313172002368 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172002369 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1313172002370 acyl-activating enzyme (AAE) consensus motif; other site 1313172002371 acyl-activating enzyme (AAE) consensus motif; other site 1313172002372 putative AMP binding site [chemical binding]; other site 1313172002373 putative active site [active] 1313172002374 putative CoA binding site [chemical binding]; other site 1313172002375 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1313172002376 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 1313172002377 putative substrate binding site [chemical binding]; other site 1313172002378 putative ATP binding site [chemical binding]; other site 1313172002379 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1313172002380 alanine racemase; Reviewed; Region: alr; PRK00053 1313172002381 active site 1313172002382 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1313172002383 dimer interface [polypeptide binding]; other site 1313172002384 substrate binding site [chemical binding]; other site 1313172002385 catalytic residues [active] 1313172002386 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1313172002387 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1313172002388 Glycoprotease family; Region: Peptidase_M22; pfam00814 1313172002389 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1313172002390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172002391 Coenzyme A binding pocket [chemical binding]; other site 1313172002392 UGMP family protein; Validated; Region: PRK09604 1313172002393 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1313172002394 Fasciclin domain; Region: Fasciclin; pfam02469 1313172002395 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1313172002396 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 1313172002397 FMN binding site [chemical binding]; other site 1313172002398 active site 1313172002399 catalytic residues [active] 1313172002400 substrate binding site [chemical binding]; other site 1313172002401 Maf-like protein; Region: Maf; pfam02545 1313172002402 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 1313172002403 active site 1313172002404 dimer interface [polypeptide binding]; other site 1313172002405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172002406 active site 1313172002407 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 1313172002408 MoaE homodimer interface [polypeptide binding]; other site 1313172002409 MoaD interaction [polypeptide binding]; other site 1313172002410 active site residues [active] 1313172002411 rod shape-determining protein MreB; Provisional; Region: PRK13930 1313172002412 MreB and similar proteins; Region: MreB_like; cd10225 1313172002413 nucleotide binding site [chemical binding]; other site 1313172002414 Mg binding site [ion binding]; other site 1313172002415 putative protofilament interaction site [polypeptide binding]; other site 1313172002416 RodZ interaction site [polypeptide binding]; other site 1313172002417 RNB domain; Region: RNB; pfam00773 1313172002418 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1313172002419 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1313172002420 RNA binding site [nucleotide binding]; other site 1313172002421 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1313172002422 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1313172002423 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1313172002424 active site 1313172002425 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1313172002426 catalytic triad [active] 1313172002427 dimer interface [polypeptide binding]; other site 1313172002428 Nitroreductase family; Region: Nitroreductase; pfam00881 1313172002429 FMN binding site [chemical binding]; other site 1313172002430 dimer interface [polypeptide binding]; other site 1313172002431 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1313172002432 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172002433 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 1313172002434 active site 1313172002435 Helix-turn-helix domain; Region: HTH_17; cl17695 1313172002436 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 1313172002437 Abortive infection C-terminus; Region: Abi_C; pfam14355 1313172002438 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 1313172002439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172002440 putative substrate translocation pore; other site 1313172002441 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172002442 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172002443 putative acyl-acceptor binding pocket; other site 1313172002444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1313172002445 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1313172002446 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172002447 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 1313172002448 DNA binding residues [nucleotide binding] 1313172002449 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1313172002450 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 1313172002451 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1313172002452 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 1313172002453 S-adenosylmethionine binding site [chemical binding]; other site 1313172002454 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172002455 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 1313172002456 Transposase IS200 like; Region: Y1_Tnp; cl00848 1313172002457 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172002458 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172002459 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; cl17257 1313172002460 DNA binding residues [nucleotide binding] 1313172002461 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1313172002462 active site 1313172002463 catalytic residues [active] 1313172002464 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1313172002465 dimerization interface [polypeptide binding]; other site 1313172002466 putative tRNAtyr binding site [nucleotide binding]; other site 1313172002467 putative active site [active] 1313172002468 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1313172002469 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1313172002470 putative active site [active] 1313172002471 catalytic triad [active] 1313172002472 putative dimer interface [polypeptide binding]; other site 1313172002473 Sortase family; Region: Sortase; pfam04203 1313172002474 active site 1313172002475 catalytic site [active] 1313172002476 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1313172002477 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1313172002478 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 1313172002479 substrate binding site [chemical binding]; other site 1313172002480 active site 1313172002481 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1313172002482 Part of AAA domain; Region: AAA_19; pfam13245 1313172002483 PhoH-like protein; Region: PhoH; cl17668 1313172002484 Family description; Region: UvrD_C_2; pfam13538 1313172002485 Helix-turn-helix domain; Region: HTH_17; cl17695 1313172002486 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172002487 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1313172002488 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1313172002489 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1313172002490 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1313172002491 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1313172002492 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 1313172002493 ATP binding site [chemical binding]; other site 1313172002494 putative Mg++ binding site [ion binding]; other site 1313172002495 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1313172002496 ATP-binding site [chemical binding]; other site 1313172002497 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1313172002498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172002499 Walker A/P-loop; other site 1313172002500 ATP binding site [chemical binding]; other site 1313172002501 Q-loop/lid; other site 1313172002502 ABC transporter signature motif; other site 1313172002503 Walker B; other site 1313172002504 D-loop; other site 1313172002505 H-loop/switch region; other site 1313172002506 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172002507 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1313172002508 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172002509 Zn2+ binding site [ion binding]; other site 1313172002510 Mg2+ binding site [ion binding]; other site 1313172002511 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172002512 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172002513 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 1313172002514 DNA binding residues [nucleotide binding] 1313172002515 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 1313172002516 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 1313172002517 ATP binding site [chemical binding]; other site 1313172002518 putative Mg++ binding site [ion binding]; other site 1313172002519 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 1313172002520 nucleotide binding region [chemical binding]; other site 1313172002521 ATP-binding site [chemical binding]; other site 1313172002522 DEAD/H associated; Region: DEAD_assoc; pfam08494 1313172002523 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1313172002524 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1313172002525 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1313172002526 Predicted transcriptional regulators [Transcription]; Region: COG1695 1313172002527 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1313172002528 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1313172002529 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172002530 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172002531 Walker A/P-loop; other site 1313172002532 ATP binding site [chemical binding]; other site 1313172002533 Q-loop/lid; other site 1313172002534 ABC transporter signature motif; other site 1313172002535 Walker B; other site 1313172002536 D-loop; other site 1313172002537 H-loop/switch region; other site 1313172002538 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172002539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172002540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172002541 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 1313172002542 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 1313172002543 substrate binding site [chemical binding]; other site 1313172002544 oxyanion hole (OAH) forming residues; other site 1313172002545 trimer interface [polypeptide binding]; other site 1313172002546 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172002547 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1313172002548 Ca2+ binding site [ion binding]; other site 1313172002549 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1313172002550 Ca2+ binding site [ion binding]; other site 1313172002551 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 1313172002552 active site 1313172002553 catalytic site [active] 1313172002554 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 1313172002555 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172002556 Walker A/P-loop; other site 1313172002557 ATP binding site [chemical binding]; other site 1313172002558 Q-loop/lid; other site 1313172002559 ABC transporter signature motif; other site 1313172002560 Walker B; other site 1313172002561 D-loop; other site 1313172002562 H-loop/switch region; other site 1313172002563 CcmB protein; Region: CcmB; cl17444 1313172002564 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1313172002565 CcmE; Region: CcmE; cl00994 1313172002566 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1313172002567 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 1313172002568 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172002569 catalytic residues [active] 1313172002570 Cytochrome C biogenesis protein; Region: CcmH; cl01179 1313172002571 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 1313172002572 catalytic core [active] 1313172002573 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 1313172002574 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 1313172002575 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 1313172002576 active site 1313172002577 DNA binding site [nucleotide binding] 1313172002578 catalytic site [active] 1313172002579 Nuclease-related domain; Region: NERD; pfam08378 1313172002580 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1313172002581 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1313172002582 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1313172002583 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 1313172002584 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1313172002585 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1313172002586 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1313172002587 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1313172002588 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1313172002589 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1313172002590 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1313172002591 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1313172002592 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1313172002593 conserved cys residue [active] 1313172002594 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1313172002595 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1313172002596 conserved cys residue [active] 1313172002597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172002598 HYR domain; Region: HYR; pfam02494 1313172002599 HYR domain; Region: HYR; pfam02494 1313172002600 HYR domain; Region: HYR; pfam02494 1313172002601 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1313172002602 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1313172002603 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1313172002604 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1313172002605 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 1313172002606 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172002607 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1313172002608 DTAP/Switch II; other site 1313172002609 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1313172002610 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172002611 P loop; other site 1313172002612 Nucleotide binding site [chemical binding]; other site 1313172002613 DTAP/Switch II; other site 1313172002614 Switch I; other site 1313172002615 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172002616 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 1313172002617 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1313172002618 Histidine kinase; Region: HisKA_2; pfam07568 1313172002619 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 1313172002620 ATP binding site [chemical binding]; other site 1313172002621 Mg2+ binding site [ion binding]; other site 1313172002622 G-X-G motif; other site 1313172002623 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172002624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172002625 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 1313172002626 DNA binding residues [nucleotide binding] 1313172002627 Transcription factor WhiB; Region: Whib; pfam02467 1313172002628 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1313172002629 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1313172002630 active site 1313172002631 catalytic site [active] 1313172002632 metal binding site [ion binding]; metal-binding site 1313172002633 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1313172002634 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1313172002635 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 1313172002636 Ligand binding site [chemical binding]; other site 1313172002637 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1313172002638 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1313172002639 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1313172002640 Ligand Binding Site [chemical binding]; other site 1313172002641 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1313172002642 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172002643 Cupin domain; Region: Cupin_2; cl17218 1313172002644 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1313172002645 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 1313172002646 S-adenosylmethionine binding site [chemical binding]; other site 1313172002647 conserved hypothetical protein; Region: TIGR03843 1313172002648 Protein of unknown function (DUF3090); Region: DUF3090; cl12832 1313172002649 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 1313172002650 catalytic core [active] 1313172002651 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1313172002652 Fe-S cluster binding site [ion binding]; other site 1313172002653 DNA binding site [nucleotide binding] 1313172002654 active site 1313172002655 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002656 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172002657 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002658 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002659 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002660 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002661 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002662 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172002663 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002664 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002665 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002666 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172002667 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002668 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002669 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002670 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002671 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172002672 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002673 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172002674 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1313172002675 Interdomain contacts; other site 1313172002676 Cytokine receptor motif; other site 1313172002677 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1313172002678 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1313172002679 substrate binding pocket [chemical binding]; other site 1313172002680 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172002681 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1313172002682 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1313172002683 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1313172002684 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 1313172002685 active site 1313172002686 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1313172002687 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1313172002688 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1313172002689 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1313172002690 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1313172002691 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1313172002692 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172002693 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1313172002694 FAD binding site [chemical binding]; other site 1313172002695 substrate binding site [chemical binding]; other site 1313172002696 catalytic base [active] 1313172002697 putative transporter; Provisional; Region: PRK12382 1313172002698 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 1313172002699 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 1313172002700 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1313172002701 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1313172002702 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1313172002703 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1313172002704 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1313172002705 minor groove reading motif; other site 1313172002706 helix-hairpin-helix signature motif; other site 1313172002707 substrate binding pocket [chemical binding]; other site 1313172002708 active site 1313172002709 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1313172002710 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1313172002711 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 1313172002712 DNA binding site [nucleotide binding] 1313172002713 active site 1313172002714 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172002715 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1313172002716 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1313172002717 Walker A/P-loop; other site 1313172002718 ATP binding site [chemical binding]; other site 1313172002719 Q-loop/lid; other site 1313172002720 ABC transporter signature motif; other site 1313172002721 Walker B; other site 1313172002722 D-loop; other site 1313172002723 H-loop/switch region; other site 1313172002724 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172002725 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1313172002726 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 1313172002727 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1313172002728 active site 1313172002729 catalytic tetrad [active] 1313172002730 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1313172002731 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 1313172002732 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172002733 catalytic residue [active] 1313172002734 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172002735 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 1313172002736 putative PBP binding loops; other site 1313172002737 ABC-ATPase subunit interface; other site 1313172002738 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1313172002739 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 1313172002740 putative PBP binding loops; other site 1313172002741 dimer interface [polypeptide binding]; other site 1313172002742 ABC-ATPase subunit interface; other site 1313172002743 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1313172002744 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1313172002745 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1313172002746 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1313172002747 DNA binding site [nucleotide binding] 1313172002748 domain linker motif; other site 1313172002749 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 1313172002750 dimerization interface [polypeptide binding]; other site 1313172002751 ligand binding site [chemical binding]; other site 1313172002752 Predicted ATPase [General function prediction only]; Region: COG3903 1313172002753 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1313172002754 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1313172002755 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1313172002756 active site 1313172002757 HIGH motif; other site 1313172002758 KMSK motif region; other site 1313172002759 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1313172002760 tRNA binding surface [nucleotide binding]; other site 1313172002761 anticodon binding site; other site 1313172002762 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1313172002763 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1313172002764 active site 1313172002765 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1313172002766 substrate binding site [chemical binding]; other site 1313172002767 catalytic residues [active] 1313172002768 dimer interface [polypeptide binding]; other site 1313172002769 PemK-like protein; Region: PemK; pfam02452 1313172002770 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1313172002771 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: PI3Kc_like; cl00119 1313172002772 homoserine dehydrogenase; Provisional; Region: PRK06349 1313172002773 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1313172002774 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1313172002775 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 1313172002776 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1313172002777 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1313172002778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172002779 catalytic residue [active] 1313172002780 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1313172002781 transcription termination factor Rho; Provisional; Region: PRK12608 1313172002782 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1313172002783 RNA binding site [nucleotide binding]; other site 1313172002784 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1313172002785 Walker A motif; other site 1313172002786 ATP binding site [chemical binding]; other site 1313172002787 Walker B motif; other site 1313172002788 Protein kinase domain; Region: Pkinase; pfam00069 1313172002789 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1313172002790 active site 1313172002791 ATP binding site [chemical binding]; other site 1313172002792 substrate binding site [chemical binding]; other site 1313172002793 activation loop (A-loop); other site 1313172002794 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1313172002795 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1313172002796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1313172002797 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1313172002798 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1313172002799 RF-1 domain; Region: RF-1; pfam00472 1313172002800 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1313172002801 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 1313172002802 S-adenosylmethionine binding site [chemical binding]; other site 1313172002803 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1313172002804 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1313172002805 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172002806 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1313172002807 active site 1313172002808 tetramer interface [polypeptide binding]; other site 1313172002809 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 1313172002810 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1313172002811 active site 1313172002812 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1313172002813 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1313172002814 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 1313172002815 dimer interface [polypeptide binding]; other site 1313172002816 active site 1313172002817 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1313172002818 folate binding site [chemical binding]; other site 1313172002819 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1313172002820 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1313172002821 Mg++ binding site [ion binding]; other site 1313172002822 putative catalytic motif [active] 1313172002823 substrate binding site [chemical binding]; other site 1313172002824 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1313172002825 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1313172002826 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1313172002827 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1313172002828 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1313172002829 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1313172002830 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 1313172002831 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1313172002832 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1313172002833 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 1313172002834 beta subunit interaction interface [polypeptide binding]; other site 1313172002835 Walker A motif; other site 1313172002836 ATP binding site [chemical binding]; other site 1313172002837 Walker B motif; other site 1313172002838 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1313172002839 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1313172002840 core domain interface [polypeptide binding]; other site 1313172002841 delta subunit interface [polypeptide binding]; other site 1313172002842 epsilon subunit interface [polypeptide binding]; other site 1313172002843 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1313172002844 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1313172002845 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1313172002846 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 1313172002847 alpha subunit interaction interface [polypeptide binding]; other site 1313172002848 Walker A motif; other site 1313172002849 ATP binding site [chemical binding]; other site 1313172002850 Walker B motif; other site 1313172002851 inhibitor binding site; inhibition site 1313172002852 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1313172002853 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1313172002854 gamma subunit interface [polypeptide binding]; other site 1313172002855 epsilon subunit interface [polypeptide binding]; other site 1313172002856 LBP interface [polypeptide binding]; other site 1313172002857 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1313172002858 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 1313172002859 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1313172002860 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1313172002861 putative active site [active] 1313172002862 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172002863 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172002864 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 1313172002865 HSP70 interaction site [polypeptide binding]; other site 1313172002866 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 1313172002867 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172002868 putative substrate translocation pore; other site 1313172002869 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1313172002870 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 1313172002871 hinge; other site 1313172002872 active site 1313172002873 NifU-like domain; Region: NifU; cl00484 1313172002874 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 1313172002875 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1313172002876 Walker A; other site 1313172002877 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 1313172002878 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 1313172002879 substrate binding site [chemical binding]; other site 1313172002880 oxyanion hole (OAH) forming residues; other site 1313172002881 trimer interface [polypeptide binding]; other site 1313172002882 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 1313172002883 putative substrate translocation pore; other site 1313172002884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172002885 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 1313172002886 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1313172002887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172002888 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 1313172002889 glycogen branching enzyme; Provisional; Region: PRK12313 1313172002890 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1313172002891 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1313172002892 active site 1313172002893 catalytic site [active] 1313172002894 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1313172002895 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1313172002896 hydrophobic ligand binding site; other site 1313172002897 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1313172002898 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 1313172002899 nucleotide binding site/active site [active] 1313172002900 HIT family signature motif; other site 1313172002901 catalytic residue [active] 1313172002902 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1313172002903 active site 1313172002904 Predicted thioesterase [General function prediction only]; Region: COG5496 1313172002905 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1313172002906 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1313172002907 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1313172002908 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 1313172002909 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1313172002910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172002911 NAD(P) binding site [chemical binding]; other site 1313172002912 active site 1313172002913 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1313172002914 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1313172002915 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1313172002916 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1313172002917 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1313172002918 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1313172002919 active site 1313172002920 tetramer interface; other site 1313172002921 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 1313172002922 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1313172002923 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 1313172002924 dimer interface [polypeptide binding]; other site 1313172002925 putative functional site; other site 1313172002926 putative MPT binding site; other site 1313172002927 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1313172002928 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 1313172002929 FeS/SAM binding site; other site 1313172002930 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1313172002931 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172002932 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172002933 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 1313172002934 trimer interface [polypeptide binding]; other site 1313172002935 dimer interface [polypeptide binding]; other site 1313172002936 putative active site [active] 1313172002937 Peptidase family M1; Region: Peptidase_M1; pfam01433 1313172002938 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1313172002939 Zn binding site [ion binding]; other site 1313172002940 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1313172002941 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1313172002942 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1313172002943 substrate binding site [chemical binding]; other site 1313172002944 ATP binding site [chemical binding]; other site 1313172002945 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1313172002946 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1313172002947 active site 1313172002948 substrate binding site [chemical binding]; other site 1313172002949 metal binding site [ion binding]; metal-binding site 1313172002950 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1313172002951 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1313172002952 adenosine deaminase; Provisional; Region: PRK09358 1313172002953 active site 1313172002954 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172002955 active site 1313172002956 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1313172002957 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 1313172002958 adenosine deaminase; Provisional; Region: PRK09358 1313172002959 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1313172002960 active site 1313172002961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172002962 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 1313172002963 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 1313172002964 TM-ABC transporter signature motif; other site 1313172002965 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172002966 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 1313172002967 TM-ABC transporter signature motif; other site 1313172002968 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1313172002969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172002970 Walker A/P-loop; other site 1313172002971 ATP binding site [chemical binding]; other site 1313172002972 Q-loop/lid; other site 1313172002973 ABC transporter signature motif; other site 1313172002974 Walker B; other site 1313172002975 D-loop; other site 1313172002976 H-loop/switch region; other site 1313172002977 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1313172002978 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1313172002979 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 1313172002980 ligand binding site [chemical binding]; other site 1313172002981 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172002982 active site 1313172002983 catalytic triad [active] 1313172002984 oxyanion hole [active] 1313172002985 enoyl-CoA hydratase; Provisional; Region: PRK06190 1313172002986 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 1313172002987 substrate binding site [chemical binding]; other site 1313172002988 oxyanion hole (OAH) forming residues; other site 1313172002989 trimer interface [polypeptide binding]; other site 1313172002990 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172002991 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 1313172002992 DNA binding residues [nucleotide binding] 1313172002993 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 1313172002994 active site 1313172002995 VanZ like family; Region: VanZ; cl01971 1313172002996 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172002997 DinB superfamily; Region: DinB_2; pfam12867 1313172002998 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172002999 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172003000 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172003001 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 1313172003002 DNA binding residues [nucleotide binding] 1313172003003 flavoprotein, HI0933 family; Region: TIGR00275 1313172003004 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172003005 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1313172003006 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172003007 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 1313172003008 putative DNA binding site [nucleotide binding]; other site 1313172003009 dimerization interface [polypeptide binding]; other site 1313172003010 putative Zn2+ binding site [ion binding]; other site 1313172003011 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172003012 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172003013 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 1313172003014 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1313172003015 putative substrate translocation pore; other site 1313172003016 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172003017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172003018 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1313172003019 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 1313172003020 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1313172003021 PYR/PP interface [polypeptide binding]; other site 1313172003022 dimer interface [polypeptide binding]; other site 1313172003023 TPP binding site [chemical binding]; other site 1313172003024 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1313172003025 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 1313172003026 TPP-binding site [chemical binding]; other site 1313172003027 dimer interface [polypeptide binding]; other site 1313172003028 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1313172003029 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1313172003030 putative valine binding site [chemical binding]; other site 1313172003031 dimer interface [polypeptide binding]; other site 1313172003032 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1313172003033 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1313172003034 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1313172003035 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1313172003036 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1313172003037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172003038 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1313172003039 DNA binding residues [nucleotide binding] 1313172003040 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 1313172003041 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 1313172003042 homodimer interface [polypeptide binding]; other site 1313172003043 substrate-cofactor binding pocket; other site 1313172003044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003045 catalytic residue [active] 1313172003046 PAC2 family; Region: PAC2; pfam09754 1313172003047 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 1313172003048 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172003049 catalytic residue [active] 1313172003050 aspartate aminotransferase; Provisional; Region: PRK05764 1313172003051 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 1313172003052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003053 homodimer interface [polypeptide binding]; other site 1313172003054 catalytic residue [active] 1313172003055 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1313172003056 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1313172003057 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1313172003058 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1313172003059 putative dimer interface [polypeptide binding]; other site 1313172003060 active site pocket [active] 1313172003061 putative cataytic base [active] 1313172003062 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 1313172003063 homotrimer interface [polypeptide binding]; other site 1313172003064 Walker A motif; other site 1313172003065 GTP binding site [chemical binding]; other site 1313172003066 Walker B motif; other site 1313172003067 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1313172003068 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 1313172003069 Walker A motif; other site 1313172003070 homodimer interface [polypeptide binding]; other site 1313172003071 ATP binding site [chemical binding]; other site 1313172003072 hydroxycobalamin binding site [chemical binding]; other site 1313172003073 Walker B motif; other site 1313172003074 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1313172003075 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172003076 putative binding site residues; other site 1313172003077 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1313172003078 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172003079 ABC-ATPase subunit interface; other site 1313172003080 dimer interface [polypeptide binding]; other site 1313172003081 putative PBP binding regions; other site 1313172003082 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1313172003083 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1313172003084 Walker A/P-loop; other site 1313172003085 ATP binding site [chemical binding]; other site 1313172003086 Q-loop/lid; other site 1313172003087 ABC transporter signature motif; other site 1313172003088 Walker B; other site 1313172003089 D-loop; other site 1313172003090 H-loop/switch region; other site 1313172003091 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 1313172003092 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1313172003093 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172003094 catalytic residue [active] 1313172003095 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1313172003096 cobyric acid synthase; Provisional; Region: PRK00784 1313172003097 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172003098 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1313172003099 catalytic triad [active] 1313172003100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1313172003101 MOSC domain; Region: MOSC; pfam03473 1313172003102 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 1313172003103 intersubunit interface [polypeptide binding]; other site 1313172003104 active site 1313172003105 Zn2+ binding site [ion binding]; other site 1313172003106 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1313172003107 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1313172003108 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1313172003109 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1313172003110 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1313172003111 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1313172003112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172003113 Coenzyme A binding pocket [chemical binding]; other site 1313172003114 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172003115 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1313172003116 Walker A/P-loop; other site 1313172003117 ATP binding site [chemical binding]; other site 1313172003118 Q-loop/lid; other site 1313172003119 ABC transporter signature motif; other site 1313172003120 Walker B; other site 1313172003121 D-loop; other site 1313172003122 H-loop/switch region; other site 1313172003123 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1313172003124 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 1313172003125 dimer interface [polypeptide binding]; other site 1313172003126 conserved gate region; other site 1313172003127 putative PBP binding loops; other site 1313172003128 ABC-ATPase subunit interface; other site 1313172003129 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 1313172003130 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1313172003131 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1313172003132 Thiamine pyrophosphokinase; Region: TPK; cd07995 1313172003133 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1313172003134 active site 1313172003135 dimerization interface [polypeptide binding]; other site 1313172003136 thiamine binding site [chemical binding]; other site 1313172003137 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1313172003138 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1313172003139 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1313172003140 active site 1313172003141 metal binding site [ion binding]; metal-binding site 1313172003142 hexamer interface [polypeptide binding]; other site 1313172003143 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1313172003144 Amidase; Region: Amidase; pfam01425 1313172003145 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 1313172003146 active site 1313172003147 metal binding site [ion binding]; metal-binding site 1313172003148 Pirin; Region: Pirin; pfam02678 1313172003149 Pirin-related protein [General function prediction only]; Region: COG1741 1313172003150 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1313172003151 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 1313172003152 putative hydrophobic ligand binding site [chemical binding]; other site 1313172003153 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 1313172003154 dimerization interface [polypeptide binding]; other site 1313172003155 putative DNA binding site [nucleotide binding]; other site 1313172003156 putative Zn2+ binding site [ion binding]; other site 1313172003157 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1313172003158 putative hydrophobic ligand binding site [chemical binding]; other site 1313172003159 RibD C-terminal domain; Region: RibD_C; cl17279 1313172003160 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1313172003161 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172003162 hydrophobic ligand binding site; other site 1313172003163 Predicted transcriptional regulators [Transcription]; Region: COG1733 1313172003164 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1313172003165 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 1313172003166 active site 1313172003167 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 1313172003168 S-adenosylmethionine binding site [chemical binding]; other site 1313172003169 Predicted ATPase [General function prediction only]; Region: COG3910 1313172003170 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172003171 Walker A/P-loop; other site 1313172003172 ATP binding site [chemical binding]; other site 1313172003173 Q-loop/lid; other site 1313172003174 ABC transporter signature motif; other site 1313172003175 Walker B; other site 1313172003176 D-loop; other site 1313172003177 H-loop/switch region; other site 1313172003178 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1313172003179 putative hydrophobic ligand binding site [chemical binding]; other site 1313172003180 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1313172003181 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 1313172003182 ATP binding site [chemical binding]; other site 1313172003183 putative Mg++ binding site [ion binding]; other site 1313172003184 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 1313172003185 nucleotide binding region [chemical binding]; other site 1313172003186 ATP-binding site [chemical binding]; other site 1313172003187 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1313172003188 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172003189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172003190 Walker A/P-loop; other site 1313172003191 ATP binding site [chemical binding]; other site 1313172003192 Q-loop/lid; other site 1313172003193 ABC transporter signature motif; other site 1313172003194 Walker B; other site 1313172003195 D-loop; other site 1313172003196 H-loop/switch region; other site 1313172003197 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1313172003198 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172003199 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1313172003200 Walker A/P-loop; other site 1313172003201 ATP binding site [chemical binding]; other site 1313172003202 Q-loop/lid; other site 1313172003203 ABC transporter signature motif; other site 1313172003204 Walker B; other site 1313172003205 D-loop; other site 1313172003206 H-loop/switch region; other site 1313172003207 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 1313172003208 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172003209 putative substrate translocation pore; other site 1313172003210 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1313172003211 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 1313172003212 ATP binding site [chemical binding]; other site 1313172003213 putative Mg++ binding site [ion binding]; other site 1313172003214 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 1313172003215 nucleotide binding region [chemical binding]; other site 1313172003216 ATP-binding site [chemical binding]; other site 1313172003217 Helicase associated domain (HA2); Region: HA2; pfam04408 1313172003218 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1313172003219 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1313172003220 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 1313172003221 active site flap/lid [active] 1313172003222 nucleophilic elbow; other site 1313172003223 catalytic triad [active] 1313172003224 hypothetical protein; Provisional; Region: PRK07906 1313172003225 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1313172003226 putative metal binding site [ion binding]; other site 1313172003227 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172003228 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1313172003229 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1313172003230 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 1313172003231 tetramer interface [polypeptide binding]; other site 1313172003232 active site 1313172003233 Mg2+/Mn2+ binding site [ion binding]; other site 1313172003234 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1313172003235 SelR domain; Region: SelR; pfam01641 1313172003236 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 1313172003237 SnoaL-like domain; Region: SnoaL_2; pfam12680 1313172003238 Survival protein SurE; Region: SurE; cl00448 1313172003239 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1313172003240 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1313172003241 EamA-like transporter family; Region: EamA; pfam00892 1313172003242 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1313172003243 EamA-like transporter family; Region: EamA; pfam00892 1313172003244 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172003245 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172003246 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1313172003247 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1313172003248 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1313172003249 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 1313172003250 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1313172003251 Cation efflux family; Region: Cation_efflux; cl00316 1313172003252 hypothetical protein; Provisional; Region: PRK04262 1313172003253 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1313172003254 active site 1313172003255 DUF35 OB-fold domain; Region: DUF35; pfam01796 1313172003256 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 1313172003257 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1313172003258 active site 1313172003259 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1313172003260 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 1313172003261 homodimer interface [polypeptide binding]; other site 1313172003262 substrate-cofactor binding pocket; other site 1313172003263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003264 catalytic residue [active] 1313172003265 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1313172003266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1313172003267 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 1313172003268 dimerization interface [polypeptide binding]; other site 1313172003269 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1313172003270 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 1313172003271 active site 1313172003272 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172003273 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 1313172003274 substrate binding site [chemical binding]; other site 1313172003275 oxyanion hole (OAH) forming residues; other site 1313172003276 trimer interface [polypeptide binding]; other site 1313172003277 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 1313172003278 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1313172003279 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1313172003280 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1313172003281 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 1313172003282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172003283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172003284 metal binding site [ion binding]; metal-binding site 1313172003285 active site 1313172003286 I-site; other site 1313172003287 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1313172003288 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 1313172003289 TPP-binding site; other site 1313172003290 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 1313172003291 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 1313172003292 PYR/PP interface [polypeptide binding]; other site 1313172003293 dimer interface [polypeptide binding]; other site 1313172003294 TPP binding site [chemical binding]; other site 1313172003295 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1313172003296 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1313172003297 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 1313172003298 S-adenosylmethionine binding site [chemical binding]; other site 1313172003299 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172003300 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 1313172003301 Walker A motif; other site 1313172003302 ATP binding site [chemical binding]; other site 1313172003303 Walker B motif; other site 1313172003304 arginine finger; other site 1313172003305 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1313172003306 Protein of unknown function DUF58; Region: DUF58; pfam01882 1313172003307 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172003308 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 1313172003309 PemK-like protein; Region: PemK; pfam02452 1313172003310 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1313172003311 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1313172003312 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1313172003313 conserved cys residue [active] 1313172003314 SET domain; Region: SET; cl02566 1313172003315 PASTA domain; Region: PASTA; smart00740 1313172003316 RNA polymerase sigma factor; Provisional; Region: PRK11924 1313172003317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172003318 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 1313172003319 DNA binding residues [nucleotide binding] 1313172003320 RNA polymerase sigma factor SigL; Provisional; Region: PRK09645 1313172003321 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172003322 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172003323 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 1313172003324 DNA binding residues [nucleotide binding] 1313172003325 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1313172003326 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1313172003327 NADP binding site [chemical binding]; other site 1313172003328 homodimer interface [polypeptide binding]; other site 1313172003329 active site 1313172003330 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 1313172003331 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 1313172003332 RDD family; Region: RDD; pfam06271 1313172003333 cysteine desulfurase; Region: PLN02651 1313172003334 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1313172003335 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172003336 catalytic residue [active] 1313172003337 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1313172003338 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 1313172003339 Ligand Binding Site [chemical binding]; other site 1313172003340 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1313172003341 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1313172003342 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 1313172003343 nucleotide binding pocket [chemical binding]; other site 1313172003344 K-X-D-G motif; other site 1313172003345 catalytic site [active] 1313172003346 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1313172003347 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1313172003348 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 1313172003349 Dimer interface [polypeptide binding]; other site 1313172003350 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1313172003351 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1313172003352 active site 1313172003353 ATP binding site [chemical binding]; other site 1313172003354 substrate binding site [chemical binding]; other site 1313172003355 activation loop (A-loop); other site 1313172003356 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1313172003357 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1313172003358 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1313172003359 short chain dehydrogenase; Provisional; Region: PRK07791 1313172003360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172003361 NAD(P) binding site [chemical binding]; other site 1313172003362 active site 1313172003363 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1313172003364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1313172003365 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 1313172003366 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1313172003367 active site 1313172003368 octamer interface [polypeptide binding]; other site 1313172003369 Uncharacterized conserved protein [Function unknown]; Region: COG3375 1313172003370 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1313172003371 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1313172003372 ligand binding site [chemical binding]; other site 1313172003373 NAD binding site [chemical binding]; other site 1313172003374 dimerization interface [polypeptide binding]; other site 1313172003375 catalytic site [active] 1313172003376 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1313172003377 putative L-serine binding site [chemical binding]; other site 1313172003378 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1313172003379 active site 1313172003380 dimer interface [polypeptide binding]; other site 1313172003381 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1313172003382 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1313172003383 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1313172003384 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1313172003385 2-isopropylmalate synthase; Validated; Region: PRK03739 1313172003386 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1313172003387 active site 1313172003388 catalytic residues [active] 1313172003389 metal binding site [ion binding]; metal-binding site 1313172003390 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1313172003391 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1313172003392 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003393 Domain of unknown function DUF11; Region: DUF11; cl17728 1313172003394 Domain of unknown function DUF11; Region: DUF11; cl17728 1313172003395 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003396 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003397 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003398 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003399 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003400 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003401 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003402 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003403 Domain of unknown function DUF11; Region: DUF11; cl17728 1313172003404 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003405 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003406 Domain of unknown function DUF11; Region: DUF11; cl17728 1313172003407 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003408 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172003409 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1313172003410 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 1313172003411 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1313172003412 ATP binding site [chemical binding]; other site 1313172003413 Mg++ binding site [ion binding]; other site 1313172003414 motif III; other site 1313172003415 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 1313172003416 nucleotide binding region [chemical binding]; other site 1313172003417 ATP-binding site [chemical binding]; other site 1313172003418 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172003419 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1313172003420 active site 1313172003421 substrate binding site [chemical binding]; other site 1313172003422 ATP binding site [chemical binding]; other site 1313172003423 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1313172003424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172003425 Walker A/P-loop; other site 1313172003426 ATP binding site [chemical binding]; other site 1313172003427 Q-loop/lid; other site 1313172003428 ABC transporter signature motif; other site 1313172003429 Walker B; other site 1313172003430 D-loop; other site 1313172003431 H-loop/switch region; other site 1313172003432 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1313172003433 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1313172003434 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1313172003435 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1313172003436 hypothetical protein; Provisional; Region: PRK07907 1313172003437 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 1313172003438 metal binding site [ion binding]; metal-binding site 1313172003439 putative dimer interface [polypeptide binding]; other site 1313172003440 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172003441 Domain of unknown function (DUF385); Region: DUF385; pfam04075 1313172003442 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1313172003443 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 1313172003444 substrate binding site [chemical binding]; other site 1313172003445 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1313172003446 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1313172003447 substrate binding site [chemical binding]; other site 1313172003448 ligand binding site [chemical binding]; other site 1313172003449 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1313172003450 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1313172003451 Bacterial transcriptional regulator; Region: IclR; pfam01614 1313172003452 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 1313172003453 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1313172003454 Predicted membrane protein [Function unknown]; Region: COG4270 1313172003455 quinolinate synthetase; Provisional; Region: PRK09375 1313172003456 L-aspartate oxidase; Provisional; Region: PRK07804 1313172003457 L-aspartate oxidase; Provisional; Region: PRK06175 1313172003458 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1313172003459 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07896 1313172003460 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1313172003461 dimerization interface [polypeptide binding]; other site 1313172003462 active site 1313172003463 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1313172003464 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1313172003465 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1313172003466 ABC1 family; Region: ABC1; pfam03109 1313172003467 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172003468 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1313172003469 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1313172003470 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1313172003471 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 1313172003472 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 1313172003473 tartrate dehydrogenase; Region: TTC; TIGR02089 1313172003474 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1313172003475 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1313172003476 homodimer interface [polypeptide binding]; other site 1313172003477 substrate-cofactor binding pocket; other site 1313172003478 catalytic residue [active] 1313172003479 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1313172003480 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1313172003481 active site 1313172003482 catalytic residues [active] 1313172003483 metal binding site [ion binding]; metal-binding site 1313172003484 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1313172003485 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172003486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172003487 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172003488 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172003489 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1313172003490 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1313172003491 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172003492 active site 1313172003493 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1313172003494 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1313172003495 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 1313172003496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003497 homodimer interface [polypeptide binding]; other site 1313172003498 catalytic residue [active] 1313172003499 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1313172003500 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172003501 acyl-activating enzyme (AAE) consensus motif; other site 1313172003502 AMP binding site [chemical binding]; other site 1313172003503 active site 1313172003504 CoA binding site [chemical binding]; other site 1313172003505 DNA polymerase IV; Validated; Region: PRK03858 1313172003506 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1313172003507 active site 1313172003508 DNA binding site [nucleotide binding] 1313172003509 CCC1-related family of proteins; Region: CCC1_like; cl00278 1313172003510 Predicted transcriptional regulators [Transcription]; Region: COG1733 1313172003511 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1313172003512 FO synthase; Reviewed; Region: fbiC; PRK09234 1313172003513 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 1313172003514 FeS/SAM binding site; other site 1313172003515 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 1313172003516 FeS/SAM binding site; other site 1313172003517 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 1313172003518 dimerization interface [polypeptide binding]; other site 1313172003519 active site 1313172003520 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 1313172003521 catalytic motif [active] 1313172003522 Zn binding site [ion binding]; other site 1313172003523 RibD C-terminal domain; Region: RibD_C; cl17279 1313172003524 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 1313172003525 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172003526 NADP binding site [chemical binding]; other site 1313172003527 dimer interface [polypeptide binding]; other site 1313172003528 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1313172003529 putative FMN binding site [chemical binding]; other site 1313172003530 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1313172003531 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1313172003532 conserved cys residue [active] 1313172003533 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1313172003534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 1313172003535 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 1313172003536 active site 1313172003537 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 1313172003538 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172003539 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1313172003540 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1313172003541 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 1313172003542 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 1313172003543 active site 1313172003544 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1313172003545 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1313172003546 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172003547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172003548 active site 1313172003549 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1313172003550 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 1313172003551 active site 1313172003552 Zn binding site [ion binding]; other site 1313172003553 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172003554 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172003555 active site 1313172003556 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1313172003557 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1313172003558 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 1313172003559 active site 1313172003560 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1313172003561 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172003562 active site 1313172003563 HIGH motif; other site 1313172003564 nucleotide binding site [chemical binding]; other site 1313172003565 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1313172003566 active site 1313172003567 KMSKS motif; other site 1313172003568 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1313172003569 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 1313172003570 putative active site [active] 1313172003571 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1313172003572 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1313172003573 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172003574 FMN binding site [chemical binding]; other site 1313172003575 dimer interface [polypeptide binding]; other site 1313172003576 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1313172003577 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 1313172003578 protein binding site [polypeptide binding]; other site 1313172003579 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172003580 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1313172003581 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1313172003582 active site 1313172003583 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1313172003584 active site 1313172003585 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1313172003586 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1313172003587 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 1313172003588 active site 2 [active] 1313172003589 active site 1 [active] 1313172003590 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 1313172003591 active site 1 [active] 1313172003592 dimer interface [polypeptide binding]; other site 1313172003593 active site 2 [active] 1313172003594 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 1313172003595 active site 2 [active] 1313172003596 active site 1 [active] 1313172003597 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 1313172003598 active site 1 [active] 1313172003599 dimer interface [polypeptide binding]; other site 1313172003600 active site 2 [active] 1313172003601 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1313172003602 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1313172003603 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1313172003604 active site 1313172003605 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1313172003606 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1313172003607 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1313172003608 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1313172003609 putative NADP binding site [chemical binding]; other site 1313172003610 active site 1313172003611 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172003612 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1313172003613 phosphate binding site [ion binding]; other site 1313172003614 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172003615 AAA ATPase domain; Region: AAA_16; pfam13191 1313172003616 Walker A motif; other site 1313172003617 ATP binding site [chemical binding]; other site 1313172003618 Predicted ATPase [General function prediction only]; Region: COG3903 1313172003619 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 1313172003620 TPR motif; other site 1313172003621 Competence-damaged protein; Region: CinA; pfam02464 1313172003622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172003623 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172003624 NAD(P) binding site [chemical binding]; other site 1313172003625 active site 1313172003626 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 1313172003627 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1313172003628 active site 1313172003629 catalytic tetrad [active] 1313172003630 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1313172003631 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 1313172003632 dimer interface [polypeptide binding]; other site 1313172003633 active site 1313172003634 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1313172003635 classical (c) SDRs; Region: SDR_c; cd05233 1313172003636 NAD(P) binding site [chemical binding]; other site 1313172003637 active site 1313172003638 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172003639 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1313172003640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172003641 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172003642 NAD(P) binding site [chemical binding]; other site 1313172003643 active site 1313172003644 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1313172003645 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1313172003646 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1313172003647 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1313172003648 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 1313172003649 S-adenosylmethionine binding site [chemical binding]; other site 1313172003650 Predicted membrane protein [Function unknown]; Region: COG2259 1313172003651 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 1313172003652 hydrophobic ligand binding site; other site 1313172003653 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172003654 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172003655 active site 1313172003656 metal binding site [ion binding]; metal-binding site 1313172003657 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172003658 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 1313172003659 [2Fe-2S] cluster binding site [ion binding]; other site 1313172003660 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 1313172003661 putative alpha subunit interface [polypeptide binding]; other site 1313172003662 putative active site [active] 1313172003663 putative substrate binding site [chemical binding]; other site 1313172003664 Fe binding site [ion binding]; other site 1313172003665 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 1313172003666 iron-sulfur cluster [ion binding]; other site 1313172003667 [2Fe-2S] cluster binding site [ion binding]; other site 1313172003668 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172003669 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172003670 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172003671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172003672 NAD(P) binding site [chemical binding]; other site 1313172003673 active site 1313172003674 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1313172003675 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; cd00531 1313172003676 short chain dehydrogenase; Provisional; Region: PRK06949 1313172003677 classical (c) SDRs; Region: SDR_c; cd05233 1313172003678 NAD(P) binding site [chemical binding]; other site 1313172003679 active site 1313172003680 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172003681 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 1313172003682 substrate binding site [chemical binding]; other site 1313172003683 oxyanion hole (OAH) forming residues; other site 1313172003684 trimer interface [polypeptide binding]; other site 1313172003685 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172003686 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1313172003687 PAS domain; Region: PAS_9; pfam13426 1313172003688 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172003689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172003690 metal binding site [ion binding]; metal-binding site 1313172003691 active site 1313172003692 I-site; other site 1313172003693 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172003694 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1313172003695 putative active site [active] 1313172003696 putative metal binding site [ion binding]; other site 1313172003697 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1313172003698 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1313172003699 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 1313172003700 Capsule biosynthesis CapC; Region: Caps_synth_CapC; cl14855 1313172003701 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 1313172003702 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1313172003703 Lamin Tail Domain; Region: LTD; pfam00932 1313172003704 Lamin Tail Domain; Region: LTD; pfam00932 1313172003705 Lamin Tail Domain; Region: LTD; pfam00932 1313172003706 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1313172003707 putative active site [active] 1313172003708 homotetrameric interface [polypeptide binding]; other site 1313172003709 metal binding site [ion binding]; metal-binding site 1313172003710 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172003711 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 1313172003712 active site 1313172003713 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1313172003714 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172003715 active site 1313172003716 HIGH motif; other site 1313172003717 nucleotide binding site [chemical binding]; other site 1313172003718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172003719 active site 1313172003720 KMSKS motif; other site 1313172003721 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1313172003722 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172003723 active site 1313172003724 catalytic triad [active] 1313172003725 oxyanion hole [active] 1313172003726 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1313172003727 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1313172003728 active site 2 [active] 1313172003729 active site 1 [active] 1313172003730 probable F420-dependent oxidoreductase, MSMEG_3544 family; Region: F420_MSMEG_3544; TIGR03854 1313172003731 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172003732 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172003733 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1313172003734 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1313172003735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172003736 NAD(P) binding site [chemical binding]; other site 1313172003737 active site 1313172003738 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1313172003739 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1313172003740 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172003741 active site 1313172003742 catalytic triad [active] 1313172003743 oxyanion hole [active] 1313172003744 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1313172003745 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172003746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172003747 ABC transporter; Region: ABC_tran_2; pfam12848 1313172003748 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172003749 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 1313172003750 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172003751 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172003752 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 1313172003753 substrate binding site [chemical binding]; other site 1313172003754 oxyanion hole (OAH) forming residues; other site 1313172003755 trimer interface [polypeptide binding]; other site 1313172003756 TAP-like protein; Region: Abhydrolase_4; pfam08386 1313172003757 fumarate hydratase; Provisional; Region: PRK15389 1313172003758 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1313172003759 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1313172003760 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1313172003761 Haemolysin-III related; Region: HlyIII; cl03831 1313172003762 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172003763 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172003764 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 1313172003765 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1313172003766 ATP binding site [chemical binding]; other site 1313172003767 putative Mg++ binding site [ion binding]; other site 1313172003768 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 1313172003769 nucleotide binding region [chemical binding]; other site 1313172003770 ATP-binding site [chemical binding]; other site 1313172003771 Helicase associated domain (HA2); Region: HA2; pfam04408 1313172003772 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1313172003773 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1313172003774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172003775 DNA-binding site [nucleotide binding]; DNA binding site 1313172003776 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 1313172003777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003778 homodimer interface [polypeptide binding]; other site 1313172003779 catalytic residue [active] 1313172003780 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1313172003781 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 1313172003782 inhibitor-cofactor binding pocket; inhibition site 1313172003783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003784 catalytic residue [active] 1313172003785 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1313172003786 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1313172003787 active site 1313172003788 catalytic triad [active] 1313172003789 dimer interface [polypeptide binding]; other site 1313172003790 phenylhydantoinase; Validated; Region: PRK08323 1313172003791 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1313172003792 tetramer interface [polypeptide binding]; other site 1313172003793 active site 1313172003794 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1313172003795 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1313172003796 tetrameric interface [polypeptide binding]; other site 1313172003797 NAD binding site [chemical binding]; other site 1313172003798 catalytic residues [active] 1313172003799 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172003800 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 1313172003801 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1313172003802 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1313172003803 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1313172003804 Walker A/P-loop; other site 1313172003805 ATP binding site [chemical binding]; other site 1313172003806 Q-loop/lid; other site 1313172003807 ABC transporter signature motif; other site 1313172003808 Walker B; other site 1313172003809 D-loop; other site 1313172003810 H-loop/switch region; other site 1313172003811 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1313172003812 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1313172003813 NMT1/THI5 like; Region: NMT1; pfam09084 1313172003814 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1313172003815 substrate binding pocket [chemical binding]; other site 1313172003816 membrane-bound complex binding site; other site 1313172003817 hinge residues; other site 1313172003818 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1313172003819 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1313172003820 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1313172003821 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 1313172003822 motif II; other site 1313172003823 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1313172003824 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1313172003825 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1313172003826 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172003827 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1313172003828 active site 1313172003829 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1313172003830 TAP-like protein; Region: Abhydrolase_4; pfam08386 1313172003831 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 1313172003832 ATP cone domain; Region: ATP-cone; pfam03477 1313172003833 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1313172003834 active site 1313172003835 dimer interface [polypeptide binding]; other site 1313172003836 catalytic residues [active] 1313172003837 effector binding site; other site 1313172003838 R2 peptide binding site; other site 1313172003839 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1313172003840 dimer interface [polypeptide binding]; other site 1313172003841 putative radical transfer pathway; other site 1313172003842 diiron center [ion binding]; other site 1313172003843 tyrosyl radical; other site 1313172003844 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1313172003845 active site 1313172003846 catalytic residues [active] 1313172003847 metal binding site [ion binding]; metal-binding site 1313172003848 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172003849 DTAP/Switch II; other site 1313172003850 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1313172003851 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172003852 DTAP/Switch II; other site 1313172003853 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172003854 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172003855 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1313172003856 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 1313172003857 putative active site [active] 1313172003858 putative catalytic site [active] 1313172003859 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1313172003860 endonuclease III; Region: ENDO3c; smart00478 1313172003861 minor groove reading motif; other site 1313172003862 helix-hairpin-helix signature motif; other site 1313172003863 substrate binding pocket [chemical binding]; other site 1313172003864 active site 1313172003865 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1313172003866 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1313172003867 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1313172003868 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1313172003869 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1313172003870 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1313172003871 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1313172003872 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 1313172003873 active site 1313172003874 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172003875 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 1313172003876 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1313172003877 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172003878 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1313172003879 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1313172003880 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1313172003881 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1313172003882 NodB motif; other site 1313172003883 active site 1313172003884 catalytic site [active] 1313172003885 metal binding site [ion binding]; metal-binding site 1313172003886 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 1313172003887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172003888 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1313172003889 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 1313172003890 active site 1313172003891 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1313172003892 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 1313172003893 S-adenosylmethionine binding site [chemical binding]; other site 1313172003894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1313172003895 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1313172003896 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl17317 1313172003897 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1313172003898 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 1313172003899 inhibitor-cofactor binding pocket; inhibition site 1313172003900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003901 catalytic residue [active] 1313172003902 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172003903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172003904 NAD(P) binding site [chemical binding]; other site 1313172003905 active site 1313172003906 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1313172003907 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 1313172003908 inhibitor-cofactor binding pocket; inhibition site 1313172003909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172003910 catalytic residue [active] 1313172003911 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172003912 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172003913 active site 1313172003914 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1313172003915 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1313172003916 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 1313172003917 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1313172003918 putative trimer interface [polypeptide binding]; other site 1313172003919 putative active site [active] 1313172003920 putative substrate binding site [chemical binding]; other site 1313172003921 putative CoA binding site [chemical binding]; other site 1313172003922 putative acyl transferase; Provisional; Region: PRK10502 1313172003923 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 1313172003924 trimer interface [polypeptide binding]; other site 1313172003925 active site 1313172003926 substrate binding site [chemical binding]; other site 1313172003927 CoA binding site [chemical binding]; other site 1313172003928 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172003929 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1313172003930 DXD motif; other site 1313172003931 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1313172003932 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1313172003933 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1313172003934 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1313172003935 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1313172003936 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1313172003937 AAA domain; Region: AAA_31; pfam13614 1313172003938 O-Antigen ligase; Region: Wzy_C; pfam04932 1313172003939 O-Antigen ligase; Region: Wzy_C; cl04850 1313172003940 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1313172003941 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 1313172003942 putative trimer interface [polypeptide binding]; other site 1313172003943 putative CoA binding site [chemical binding]; other site 1313172003944 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 1313172003945 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172003946 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1313172003947 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1313172003948 HAD-superfamily phosphatase, subfamily IIIC; Region: HAD-SF-IIIC; TIGR01681 1313172003949 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1313172003950 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1313172003951 trimer interface [polypeptide binding]; other site 1313172003952 active site 1313172003953 substrate binding site [chemical binding]; other site 1313172003954 CoA binding site [chemical binding]; other site 1313172003955 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1313172003956 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 1313172003957 active site 1313172003958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172003959 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 1313172003960 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1313172003961 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1313172003962 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1313172003963 NAD binding site [chemical binding]; other site 1313172003964 homodimer interface [polypeptide binding]; other site 1313172003965 active site 1313172003966 substrate binding site [chemical binding]; other site 1313172003967 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1313172003968 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1313172003969 structural tetrad; other site 1313172003970 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 1313172003971 catalytic residues [active] 1313172003972 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172003973 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1313172003974 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1313172003975 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172003976 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1313172003977 FeS assembly protein SufB; Region: sufB; TIGR01980 1313172003978 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1313172003979 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1313172003980 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; cl00942 1313172003981 aromatic arch; other site 1313172003982 DCoH dimer interaction site [polypeptide binding]; other site 1313172003983 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1313172003984 DCoH tetramer interaction site [polypeptide binding]; other site 1313172003985 substrate binding site [chemical binding]; other site 1313172003986 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172003987 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 1313172003988 putative substrate translocation pore; other site 1313172003989 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1313172003990 putative deacylase active site [active] 1313172003991 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172003992 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1313172003993 CoenzymeA binding site [chemical binding]; other site 1313172003994 subunit interaction site [polypeptide binding]; other site 1313172003995 PHB binding site; other site 1313172003996 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1313172003997 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1313172003998 trimerization site [polypeptide binding]; other site 1313172003999 active site 1313172004000 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1313172004001 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 1313172004002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172004003 catalytic residue [active] 1313172004004 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1313172004005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172004006 Walker A/P-loop; other site 1313172004007 ATP binding site [chemical binding]; other site 1313172004008 Q-loop/lid; other site 1313172004009 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172004010 H-loop/switch region; other site 1313172004011 WYL domain; Region: WYL; pfam13280 1313172004012 Predicted transcriptional regulator [Transcription]; Region: COG2378 1313172004013 WYL domain; Region: WYL; pfam13280 1313172004014 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1313172004015 active site 1313172004016 catalytic site [active] 1313172004017 substrate binding site [chemical binding]; other site 1313172004018 Transcription factor WhiB; Region: Whib; pfam02467 1313172004019 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1313172004020 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1313172004021 putative active site [active] 1313172004022 PhoH-like protein; Region: PhoH; pfam02562 1313172004023 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1313172004024 nucleotide binding site/active site [active] 1313172004025 HIT family signature motif; other site 1313172004026 catalytic residue [active] 1313172004027 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 1313172004028 IHF dimer interface [polypeptide binding]; other site 1313172004029 IHF - DNA interface [nucleotide binding]; other site 1313172004030 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1313172004031 Guanylyl transferase CofC like; Region: CofC; cl17472 1313172004032 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1313172004033 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1313172004034 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1313172004035 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1313172004036 RNA/DNA hybrid binding site [nucleotide binding]; other site 1313172004037 active site 1313172004038 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1313172004039 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1313172004040 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1313172004041 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1313172004042 active site 1313172004043 homotetramer interface [polypeptide binding]; other site 1313172004044 cystathionine gamma-synthase; Provisional; Region: PRK07811 1313172004045 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 1313172004046 homodimer interface [polypeptide binding]; other site 1313172004047 substrate-cofactor binding pocket; other site 1313172004048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172004049 catalytic residue [active] 1313172004050 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 1313172004051 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 1313172004052 dimer interface [polypeptide binding]; other site 1313172004053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172004054 catalytic residue [active] 1313172004055 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1313172004056 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172004057 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172004058 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172004059 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1313172004060 Fructosamine kinase; Region: Fructosamin_kin; cl17579 1313172004061 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172004062 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1313172004063 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1313172004064 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; cl00279 1313172004065 active site 1313172004066 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1313172004067 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1313172004068 putative DNA binding site [nucleotide binding]; other site 1313172004069 putative homodimer interface [polypeptide binding]; other site 1313172004070 LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: LigD_Pol_like; cd04861 1313172004071 nucleotide binding site [chemical binding]; other site 1313172004072 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172004073 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172004074 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172004075 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172004076 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1313172004077 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172004078 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1313172004079 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1313172004080 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1313172004081 active site 1313172004082 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1313172004083 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1313172004084 Walker A/P-loop; other site 1313172004085 ATP binding site [chemical binding]; other site 1313172004086 Q-loop/lid; other site 1313172004087 ABC transporter signature motif; other site 1313172004088 Walker B; other site 1313172004089 D-loop; other site 1313172004090 H-loop/switch region; other site 1313172004091 TOBE domain; Region: TOBE_2; pfam08402 1313172004092 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1313172004093 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004094 acyl-activating enzyme (AAE) consensus motif; other site 1313172004095 AMP binding site [chemical binding]; other site 1313172004096 active site 1313172004097 CoA binding site [chemical binding]; other site 1313172004098 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1313172004099 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1313172004100 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 1313172004101 ABC-ATPase subunit interface; other site 1313172004102 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1313172004103 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1313172004104 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1313172004105 L-tyrosine decarboxylase; Provisional; Region: PRK13520 1313172004106 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172004107 catalytic residue [active] 1313172004108 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004109 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172004110 acyl-activating enzyme (AAE) consensus motif; other site 1313172004111 AMP binding site [chemical binding]; other site 1313172004112 active site 1313172004113 CoA binding site [chemical binding]; other site 1313172004114 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1313172004115 Amidase; Region: Amidase; cl11426 1313172004116 probable F420-dependent oxidoreductase, Rv3093c family; Region: F420_Rv3093c; TIGR03841 1313172004117 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172004118 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 1313172004119 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 1313172004120 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1313172004121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1313172004122 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1313172004123 PAS domain S-box; Region: sensory_box; TIGR00229 1313172004124 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 1313172004125 putative active site [active] 1313172004126 heme pocket [chemical binding]; other site 1313172004127 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172004128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172004129 metal binding site [ion binding]; metal-binding site 1313172004130 active site 1313172004131 I-site; other site 1313172004132 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172004133 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1313172004134 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1313172004135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172004136 Rhomboid family; Region: Rhomboid; cl11446 1313172004137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172004138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172004139 metal binding site [ion binding]; metal-binding site 1313172004140 active site 1313172004141 I-site; other site 1313172004142 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172004143 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1313172004144 substrate binding site [chemical binding]; other site 1313172004145 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1313172004146 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1313172004147 Staphylococcal nuclease homologues; Region: SNc; smart00318 1313172004148 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1313172004149 Catalytic site; other site 1313172004150 adenosine deaminase; Provisional; Region: PRK09358 1313172004151 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1313172004152 active site 1313172004153 acetyl-CoA acetyltransferase; Provisional; Region: PRK07850 1313172004154 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 1313172004155 dimer interface [polypeptide binding]; other site 1313172004156 active site 1313172004157 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1313172004158 heme-binding site [chemical binding]; other site 1313172004159 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1313172004160 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1313172004161 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1313172004162 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1313172004163 putative NADH binding site [chemical binding]; other site 1313172004164 putative active site [active] 1313172004165 nudix motif; other site 1313172004166 putative metal binding site [ion binding]; other site 1313172004167 short chain dehydrogenase; Provisional; Region: PRK06123 1313172004168 classical (c) SDRs; Region: SDR_c; cd05233 1313172004169 NAD(P) binding site [chemical binding]; other site 1313172004170 active site 1313172004171 short chain dehydrogenase; Provisional; Region: PRK05650 1313172004172 classical (c) SDRs; Region: SDR_c; cd05233 1313172004173 NAD(P) binding site [chemical binding]; other site 1313172004174 active site 1313172004175 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1313172004176 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1313172004177 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1313172004178 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1313172004179 active site 1313172004180 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1313172004181 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172004182 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172004183 S-formylglutathione hydrolase; Region: PLN02442 1313172004184 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1313172004185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172004186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172004187 active site 1313172004188 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172004189 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1313172004190 homodimer interface [polypeptide binding]; other site 1313172004191 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172004192 NAD binding site [chemical binding]; other site 1313172004193 active site 1313172004194 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1313172004195 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1313172004196 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1313172004197 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1313172004198 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 1313172004199 motif II; other site 1313172004200 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1313172004201 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1313172004202 putative active site [active] 1313172004203 acyl-CoA synthetase; Validated; Region: PRK07798 1313172004204 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004205 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 1313172004206 acyl-activating enzyme (AAE) consensus motif; other site 1313172004207 putative AMP binding site [chemical binding]; other site 1313172004208 putative active site [active] 1313172004209 putative CoA binding site [chemical binding]; other site 1313172004210 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1313172004211 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 1313172004212 binding surface 1313172004213 TPR motif; other site 1313172004214 TPR repeat; Region: TPR_11; pfam13414 1313172004215 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 1313172004216 TPR motif; other site 1313172004217 binding surface 1313172004218 High-affinity nickel-transport protein; Region: NicO; cl00964 1313172004219 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172004220 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172004221 DinB superfamily; Region: DinB_2; pfam12867 1313172004222 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172004223 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172004224 active site 1313172004225 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172004226 Cytochrome P450; Region: p450; cl12078 1313172004227 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 1313172004228 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172004229 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172004230 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004231 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172004232 acyl-activating enzyme (AAE) consensus motif; other site 1313172004233 putative AMP binding site [chemical binding]; other site 1313172004234 putative active site [active] 1313172004235 putative CoA binding site [chemical binding]; other site 1313172004236 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1313172004237 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1313172004238 G1 box; other site 1313172004239 putative GEF interaction site [polypeptide binding]; other site 1313172004240 GTP/Mg2+ binding site [chemical binding]; other site 1313172004241 Switch I region; other site 1313172004242 G2 box; other site 1313172004243 G3 box; other site 1313172004244 Switch II region; other site 1313172004245 G4 box; other site 1313172004246 G5 box; other site 1313172004247 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 1313172004248 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 1313172004249 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172004250 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172004251 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172004252 metal binding site [ion binding]; metal-binding site 1313172004253 active site 1313172004254 I-site; other site 1313172004255 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172004256 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; cl01731 1313172004257 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 1313172004258 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1313172004259 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172004260 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1313172004261 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1313172004262 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172004263 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1313172004264 metal ion-dependent adhesion site (MIDAS); other site 1313172004265 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1313172004266 Protein of unknown function DUF58; Region: DUF58; pfam01882 1313172004267 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172004268 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1313172004269 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1313172004270 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1313172004271 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1313172004272 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 1313172004273 amidase catalytic site [active] 1313172004274 Zn binding residues [ion binding]; other site 1313172004275 substrate binding site [chemical binding]; other site 1313172004276 short chain dehydrogenase; Provisional; Region: PRK07791 1313172004277 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1313172004278 homodimer interface [polypeptide binding]; other site 1313172004279 NAD binding site [chemical binding]; other site 1313172004280 active site 1313172004281 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 1313172004282 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1313172004283 dimer interaction site [polypeptide binding]; other site 1313172004284 substrate-binding tunnel; other site 1313172004285 active site 1313172004286 catalytic site [active] 1313172004287 substrate binding site [chemical binding]; other site 1313172004288 acyl-CoA synthetase; Provisional; Region: PRK13391 1313172004289 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004290 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172004291 acyl-activating enzyme (AAE) consensus motif; other site 1313172004292 acyl-activating enzyme (AAE) consensus motif; other site 1313172004293 putative AMP binding site [chemical binding]; other site 1313172004294 putative active site [active] 1313172004295 putative CoA binding site [chemical binding]; other site 1313172004296 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1313172004297 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1313172004298 dimer interface [polypeptide binding]; other site 1313172004299 motif 1; other site 1313172004300 active site 1313172004301 motif 2; other site 1313172004302 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1313172004303 putative deacylase active site [active] 1313172004304 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1313172004305 active site 1313172004306 motif 3; other site 1313172004307 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1313172004308 anticodon binding site; other site 1313172004309 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1313172004310 DinB superfamily; Region: DinB_2; pfam12867 1313172004311 H+ Antiporter protein; Region: 2A0121; TIGR00900 1313172004312 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1313172004313 Sm and related proteins; Region: Sm_like; cl00259 1313172004314 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1313172004315 putative oligomer interface [polypeptide binding]; other site 1313172004316 putative RNA binding site [nucleotide binding]; other site 1313172004317 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1313172004318 NusA N-terminal domain; Region: NusA_N; pfam08529 1313172004319 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 1313172004320 RNA binding site [nucleotide binding]; other site 1313172004321 homodimer interface [polypeptide binding]; other site 1313172004322 NusA-like KH domain; Region: KH_5; pfam13184 1313172004323 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 1313172004324 G-X-X-G motif; other site 1313172004325 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1313172004326 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1313172004327 putative RNA binding cleft [nucleotide binding]; other site 1313172004328 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1313172004329 translation initiation factor IF-2; Region: IF-2; TIGR00487 1313172004330 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1313172004331 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1313172004332 G1 box; other site 1313172004333 putative GEF interaction site [polypeptide binding]; other site 1313172004334 GTP/Mg2+ binding site [chemical binding]; other site 1313172004335 Switch I region; other site 1313172004336 G2 box; other site 1313172004337 G3 box; other site 1313172004338 Switch II region; other site 1313172004339 G4 box; other site 1313172004340 G5 box; other site 1313172004341 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 1313172004342 Translation-initiation factor 2; Region: IF-2; pfam11987 1313172004343 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 1313172004344 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 1313172004345 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1313172004346 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1313172004347 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 1313172004348 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1313172004349 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 1313172004350 dimer interface [polypeptide binding]; other site 1313172004351 conserved gate region; other site 1313172004352 putative PBP binding loops; other site 1313172004353 ABC-ATPase subunit interface; other site 1313172004354 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1313172004355 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 1313172004356 dimer interface [polypeptide binding]; other site 1313172004357 conserved gate region; other site 1313172004358 putative PBP binding loops; other site 1313172004359 ABC-ATPase subunit interface; other site 1313172004360 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172004361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172004362 Walker A/P-loop; other site 1313172004363 ATP binding site [chemical binding]; other site 1313172004364 Q-loop/lid; other site 1313172004365 ABC transporter signature motif; other site 1313172004366 Walker B; other site 1313172004367 D-loop; other site 1313172004368 H-loop/switch region; other site 1313172004369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1313172004370 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1313172004371 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172004372 Walker A/P-loop; other site 1313172004373 ATP binding site [chemical binding]; other site 1313172004374 Q-loop/lid; other site 1313172004375 ABC transporter signature motif; other site 1313172004376 Walker B; other site 1313172004377 D-loop; other site 1313172004378 H-loop/switch region; other site 1313172004379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1313172004380 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172004381 Ribosome-binding factor A; Region: RBFA; pfam02033 1313172004382 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 1313172004383 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1313172004384 RNA binding site [nucleotide binding]; other site 1313172004385 active site 1313172004386 acyl-CoA synthetase; Validated; Region: PRK06188 1313172004387 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004388 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172004389 acyl-activating enzyme (AAE) consensus motif; other site 1313172004390 putative AMP binding site [chemical binding]; other site 1313172004391 putative active site [active] 1313172004392 putative CoA binding site [chemical binding]; other site 1313172004393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172004394 short chain dehydrogenase; Validated; Region: PRK07069 1313172004395 NAD(P) binding site [chemical binding]; other site 1313172004396 active site 1313172004397 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 1313172004398 ATP binding site [chemical binding]; other site 1313172004399 Mg2+ binding site [ion binding]; other site 1313172004400 G-X-G motif; other site 1313172004401 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172004402 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1313172004403 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1313172004404 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 1313172004405 putative active site [active] 1313172004406 heme pocket [chemical binding]; other site 1313172004407 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 1313172004408 dimer interface [polypeptide binding]; other site 1313172004409 phosphorylation site [posttranslational modification] 1313172004410 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 1313172004411 ATP binding site [chemical binding]; other site 1313172004412 Mg2+ binding site [ion binding]; other site 1313172004413 G-X-G motif; other site 1313172004414 Response regulator receiver domain; Region: Response_reg; pfam00072 1313172004415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172004416 active site 1313172004417 phosphorylation site [posttranslational modification] 1313172004418 intermolecular recognition site; other site 1313172004419 dimerization interface [polypeptide binding]; other site 1313172004420 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172004421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172004422 active site 1313172004423 phosphorylation site [posttranslational modification] 1313172004424 intermolecular recognition site; other site 1313172004425 dimerization interface [polypeptide binding]; other site 1313172004426 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 1313172004427 DNA binding residues [nucleotide binding] 1313172004428 dimerization interface [polypeptide binding]; other site 1313172004429 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 1313172004430 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172004431 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1313172004432 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1313172004433 active site 1313172004434 Riboflavin kinase; Region: Flavokinase; smart00904 1313172004435 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 1313172004436 16S/18S rRNA binding site [nucleotide binding]; other site 1313172004437 S13e-L30e interaction site [polypeptide binding]; other site 1313172004438 25S rRNA binding site [nucleotide binding]; other site 1313172004439 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1313172004440 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1313172004441 oligomer interface [polypeptide binding]; other site 1313172004442 RNA binding site [nucleotide binding]; other site 1313172004443 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1313172004444 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1313172004445 RNase E interface [polypeptide binding]; other site 1313172004446 trimer interface [polypeptide binding]; other site 1313172004447 active site 1313172004448 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 1313172004449 putative nucleic acid binding region [nucleotide binding]; other site 1313172004450 G-X-X-G motif; other site 1313172004451 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 1313172004452 RNA binding site [nucleotide binding]; other site 1313172004453 domain interface; other site 1313172004454 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1313172004455 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1313172004456 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1313172004457 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1313172004458 active site 1313172004459 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1313172004460 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1313172004461 B3/4 domain; Region: B3_4; pfam03483 1313172004462 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1313172004463 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 1313172004464 non-specific DNA binding site [nucleotide binding]; other site 1313172004465 salt bridge; other site 1313172004466 sequence-specific DNA binding site [nucleotide binding]; other site 1313172004467 Cupin domain; Region: Cupin_2; pfam07883 1313172004468 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1313172004469 PemK-like protein; Region: PemK; pfam02452 1313172004470 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 1313172004471 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1313172004472 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1313172004473 dimer interface [polypeptide binding]; other site 1313172004474 catalytic triad [active] 1313172004475 peroxidatic and resolving cysteines [active] 1313172004476 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172004477 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1313172004478 dimer interface [polypeptide binding]; other site 1313172004479 acyl-activating enzyme (AAE) consensus motif; other site 1313172004480 putative active site [active] 1313172004481 AMP binding site [chemical binding]; other site 1313172004482 putative CoA binding site [chemical binding]; other site 1313172004483 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1313172004484 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1313172004485 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1313172004486 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1313172004487 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 1313172004488 Moco binding site; other site 1313172004489 metal coordination site [ion binding]; other site 1313172004490 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1313172004491 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172004492 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 1313172004493 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1313172004494 active site 1313172004495 catalytic triad [active] 1313172004496 oxyanion hole [active] 1313172004497 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1313172004498 catalytic triad [active] 1313172004499 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1313172004500 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1313172004501 Walker A/P-loop; other site 1313172004502 ATP binding site [chemical binding]; other site 1313172004503 Q-loop/lid; other site 1313172004504 ABC transporter signature motif; other site 1313172004505 Walker B; other site 1313172004506 D-loop; other site 1313172004507 H-loop/switch region; other site 1313172004508 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1313172004509 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 1313172004510 dimer interface [polypeptide binding]; other site 1313172004511 conserved gate region; other site 1313172004512 putative PBP binding loops; other site 1313172004513 ABC-ATPase subunit interface; other site 1313172004514 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 1313172004515 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1313172004516 substrate binding pocket [chemical binding]; other site 1313172004517 membrane-bound complex binding site; other site 1313172004518 hinge residues; other site 1313172004519 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1313172004520 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1313172004521 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1313172004522 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1313172004523 putative NAD(P) binding site [chemical binding]; other site 1313172004524 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1313172004525 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1313172004526 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1313172004527 dimer interface [polypeptide binding]; other site 1313172004528 active site 1313172004529 catalytic residue [active] 1313172004530 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1313172004531 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172004532 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1313172004533 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1313172004534 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1313172004535 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 1313172004536 Walker A motif; other site 1313172004537 ATP binding site [chemical binding]; other site 1313172004538 Walker B motif; other site 1313172004539 arginine finger; other site 1313172004540 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1313172004541 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1313172004542 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1313172004543 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1313172004544 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1313172004545 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172004546 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172004547 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1313172004548 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1313172004549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1313172004550 TIGR03086 family protein; Region: TIGR03086 1313172004551 Predicted transcriptional regulator [Transcription]; Region: COG2378 1313172004552 WYL domain; Region: WYL; pfam13280 1313172004553 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1313172004554 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1313172004555 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 1313172004556 FeS/SAM binding site; other site 1313172004557 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1313172004558 competence damage-inducible protein A; Provisional; Region: PRK00549 1313172004559 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 1313172004560 putative MPT binding site; other site 1313172004561 Competence-damaged protein; Region: CinA; pfam02464 1313172004562 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1313172004563 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1313172004564 putative catalytic site [active] 1313172004565 putative metal binding site [ion binding]; other site 1313172004566 putative phosphate binding site [ion binding]; other site 1313172004567 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1313172004568 substrate binding site [chemical binding]; other site 1313172004569 metal binding site [ion binding]; metal-binding site 1313172004570 dimer interface [polypeptide binding]; other site 1313172004571 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1313172004572 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1313172004573 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1313172004574 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172004575 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1313172004576 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172004577 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 1313172004578 active site 1313172004579 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1313172004580 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1313172004581 DNA binding residues [nucleotide binding] 1313172004582 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172004583 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172004584 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172004585 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172004586 FMN binding site [chemical binding]; other site 1313172004587 dimer interface [polypeptide binding]; other site 1313172004588 active site 1313172004589 metal binding site [ion binding]; metal-binding site 1313172004590 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase_4; pfam13669 1313172004591 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 1313172004592 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004593 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1313172004594 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172004595 acyl-activating enzyme (AAE) consensus motif; other site 1313172004596 acyl-activating enzyme (AAE) consensus motif; other site 1313172004597 putative AMP binding site [chemical binding]; other site 1313172004598 putative active site [active] 1313172004599 putative CoA binding site [chemical binding]; other site 1313172004600 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1313172004601 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172004602 active site 1313172004603 Cupin; Region: Cupin_6; pfam12852 1313172004604 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172004605 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1313172004606 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172004607 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 1313172004608 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1313172004609 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172004610 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 1313172004611 [2Fe-2S] cluster binding site [ion binding]; other site 1313172004612 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172004613 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172004614 hydrophobic ligand binding site; other site 1313172004615 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172004616 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 1313172004617 ligand binding site [chemical binding]; other site 1313172004618 flexible hinge region; other site 1313172004619 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1313172004620 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 1313172004621 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 1313172004622 inhibitor-cofactor binding pocket; inhibition site 1313172004623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172004624 catalytic residue [active] 1313172004625 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1313172004626 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1313172004627 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1313172004628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172004629 Coenzyme A binding pocket [chemical binding]; other site 1313172004630 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1313172004631 homooctamer interface [polypeptide binding]; other site 1313172004632 active site 1313172004633 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 1313172004634 catalytic center binding site [active] 1313172004635 ATP binding site [chemical binding]; other site 1313172004636 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1313172004637 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1313172004638 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 1313172004639 catalytic core [active] 1313172004640 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 1313172004641 substrate binding pocket [chemical binding]; other site 1313172004642 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172004643 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172004644 active site 1313172004645 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172004646 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172004647 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1313172004648 putative uracil binding site [chemical binding]; other site 1313172004649 putative active site [active] 1313172004650 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 1313172004651 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1313172004652 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172004653 TIGR03086 family protein; Region: TIGR03086 1313172004654 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172004655 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172004656 active site 1313172004657 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1313172004658 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1313172004659 DoxX-like family; Region: DoxX_2; pfam13564 1313172004660 Sulfatase; Region: Sulfatase; cl17466 1313172004661 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172004662 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1313172004663 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172004664 Sulfatase; Region: Sulfatase; cl17466 1313172004665 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1313172004666 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172004667 putative active site [active] 1313172004668 putative substrate binding site [chemical binding]; other site 1313172004669 ATP binding site [chemical binding]; other site 1313172004670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172004671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172004672 NAD(P) binding site [chemical binding]; other site 1313172004673 active site 1313172004674 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 1313172004675 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172004676 active site 1313172004677 metal binding site [ion binding]; metal-binding site 1313172004678 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1313172004679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172004680 DNA-binding site [nucleotide binding]; DNA binding site 1313172004681 FCD domain; Region: FCD; pfam07729 1313172004682 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1313172004683 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004684 acyl-activating enzyme (AAE) consensus motif; other site 1313172004685 AMP binding site [chemical binding]; other site 1313172004686 active site 1313172004687 CoA binding site [chemical binding]; other site 1313172004688 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172004689 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172004690 active site 1313172004691 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1313172004692 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1313172004693 active site 1313172004694 dimer interface [polypeptide binding]; other site 1313172004695 metal binding site [ion binding]; metal-binding site 1313172004696 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1313172004697 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172004698 lipid-transfer protein; Provisional; Region: PRK08256 1313172004699 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1313172004700 active site 1313172004701 DUF35 OB-fold domain; Region: DUF35; pfam01796 1313172004702 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172004703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172004704 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1313172004705 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1313172004706 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172004707 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172004708 acyl-activating enzyme (AAE) consensus motif; other site 1313172004709 acyl-activating enzyme (AAE) consensus motif; other site 1313172004710 putative AMP binding site [chemical binding]; other site 1313172004711 putative active site [active] 1313172004712 putative CoA binding site [chemical binding]; other site 1313172004713 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1313172004714 classical (c) SDRs; Region: SDR_c; cd05233 1313172004715 NAD(P) binding site [chemical binding]; other site 1313172004716 active site 1313172004717 enoyl-CoA hydratase; Provisional; Region: PRK08252 1313172004718 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 1313172004719 substrate binding site [chemical binding]; other site 1313172004720 oxyanion hole (OAH) forming residues; other site 1313172004721 trimer interface [polypeptide binding]; other site 1313172004722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172004723 NAD(P) binding site [chemical binding]; other site 1313172004724 active site 1313172004725 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172004726 classical (c) SDRs; Region: SDR_c; cd05233 1313172004727 NAD(P) binding site [chemical binding]; other site 1313172004728 active site 1313172004729 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1313172004730 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1313172004731 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1313172004732 enoyl-CoA hydratase; Provisional; Region: PRK06688 1313172004733 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 1313172004734 substrate binding site [chemical binding]; other site 1313172004735 oxyanion hole (OAH) forming residues; other site 1313172004736 trimer interface [polypeptide binding]; other site 1313172004737 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172004738 classical (c) SDRs; Region: SDR_c; cd05233 1313172004739 NAD(P) binding site [chemical binding]; other site 1313172004740 active site 1313172004741 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172004742 classical (c) SDRs; Region: SDR_c; cd05233 1313172004743 NAD(P) binding site [chemical binding]; other site 1313172004744 active site 1313172004745 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172004746 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172004747 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172004748 hypothetical protein; Provisional; Region: PRK07906 1313172004749 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1313172004750 putative metal binding site [ion binding]; other site 1313172004751 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 1313172004752 non-specific DNA binding site [nucleotide binding]; other site 1313172004753 salt bridge; other site 1313172004754 sequence-specific DNA binding site [nucleotide binding]; other site 1313172004755 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1313172004756 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1313172004757 oligomer interface [polypeptide binding]; other site 1313172004758 active site residues [active] 1313172004759 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1313172004760 oligomer interface [polypeptide binding]; other site 1313172004761 active site residues [active] 1313172004762 H+ Antiporter protein; Region: 2A0121; TIGR00900 1313172004763 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 1313172004764 putative substrate translocation pore; other site 1313172004765 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 1313172004766 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1313172004767 active site 1313172004768 catalytic tetrad [active] 1313172004769 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1313172004770 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172004771 DNA binding residues [nucleotide binding] 1313172004772 putative dimer interface [polypeptide binding]; other site 1313172004773 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1313172004774 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1313172004775 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1313172004776 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1313172004777 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1313172004778 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 1313172004779 Ligand Binding Site [chemical binding]; other site 1313172004780 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 1313172004781 Ligand Binding Site [chemical binding]; other site 1313172004782 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 1313172004783 Ligand Binding Site [chemical binding]; other site 1313172004784 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 1313172004785 Ligand Binding Site [chemical binding]; other site 1313172004786 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172004787 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 1313172004788 ligand binding site [chemical binding]; other site 1313172004789 flexible hinge region; other site 1313172004790 Predicted membrane protein [Function unknown]; Region: COG2323 1313172004791 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 1313172004792 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1313172004793 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172004794 Walker A/P-loop; other site 1313172004795 ATP binding site [chemical binding]; other site 1313172004796 Q-loop/lid; other site 1313172004797 ABC transporter signature motif; other site 1313172004798 Walker B; other site 1313172004799 D-loop; other site 1313172004800 H-loop/switch region; other site 1313172004801 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1313172004802 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1313172004803 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1313172004804 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1313172004805 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1313172004806 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 1313172004807 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172004808 GAF domain; Region: GAF; pfam01590 1313172004809 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 1313172004810 PAS domain; Region: PAS_9; pfam13426 1313172004811 putative active site [active] 1313172004812 heme pocket [chemical binding]; other site 1313172004813 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172004814 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172004815 metal binding site [ion binding]; metal-binding site 1313172004816 active site 1313172004817 I-site; other site 1313172004818 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172004819 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172004820 Cytochrome P450; Region: p450; cl12078 1313172004821 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172004822 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172004823 active site 1313172004824 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 1313172004825 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172004826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172004827 active site 1313172004828 phosphorylation site [posttranslational modification] 1313172004829 intermolecular recognition site; other site 1313172004830 dimerization interface [polypeptide binding]; other site 1313172004831 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 1313172004832 DNA binding residues [nucleotide binding] 1313172004833 dimerization interface [polypeptide binding]; other site 1313172004834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1313172004835 Histidine kinase; Region: HisKA_3; pfam07730 1313172004836 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 1313172004837 ATP binding site [chemical binding]; other site 1313172004838 Mg2+ binding site [ion binding]; other site 1313172004839 G-X-G motif; other site 1313172004840 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1313172004841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172004842 active site 1313172004843 phosphorylation site [posttranslational modification] 1313172004844 intermolecular recognition site; other site 1313172004845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1313172004846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1313172004847 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 1313172004848 dimerization interface [polypeptide binding]; other site 1313172004849 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1313172004850 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 1313172004851 dimer interface [polypeptide binding]; other site 1313172004852 conserved gate region; other site 1313172004853 ABC-ATPase subunit interface; other site 1313172004854 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1313172004855 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 1313172004856 dimer interface [polypeptide binding]; other site 1313172004857 conserved gate region; other site 1313172004858 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 1313172004859 ABC-ATPase subunit interface; other site 1313172004860 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172004861 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172004862 Walker A/P-loop; other site 1313172004863 ATP binding site [chemical binding]; other site 1313172004864 Q-loop/lid; other site 1313172004865 ABC transporter signature motif; other site 1313172004866 Walker B; other site 1313172004867 D-loop; other site 1313172004868 H-loop/switch region; other site 1313172004869 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1313172004870 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172004871 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172004872 Walker A/P-loop; other site 1313172004873 ATP binding site [chemical binding]; other site 1313172004874 Q-loop/lid; other site 1313172004875 ABC transporter signature motif; other site 1313172004876 Walker B; other site 1313172004877 D-loop; other site 1313172004878 H-loop/switch region; other site 1313172004879 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1313172004880 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 1313172004881 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1313172004882 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172004883 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172004884 enoyl-CoA hydratase; Provisional; Region: PRK06688 1313172004885 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 1313172004886 substrate binding site [chemical binding]; other site 1313172004887 oxyanion hole (OAH) forming residues; other site 1313172004888 trimer interface [polypeptide binding]; other site 1313172004889 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172004890 Cytochrome P450; Region: p450; cl12078 1313172004891 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1313172004892 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1313172004893 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1313172004894 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1313172004895 catalytic Zn binding site [ion binding]; other site 1313172004896 NAD binding site [chemical binding]; other site 1313172004897 structural Zn binding site [ion binding]; other site 1313172004898 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 1313172004899 short chain dehydrogenase; Provisional; Region: PRK06180 1313172004900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172004901 NAD(P) binding site [chemical binding]; other site 1313172004902 active site 1313172004903 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1313172004904 MarR family; Region: MarR_2; pfam12802 1313172004905 Pirin-related protein [General function prediction only]; Region: COG1741 1313172004906 Pirin; Region: Pirin; pfam02678 1313172004907 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1313172004908 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 1313172004909 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1313172004910 Ion channel; Region: Ion_trans_2; pfam07885 1313172004911 TrkA-N domain; Region: TrkA_N; pfam02254 1313172004912 TrkA-C domain; Region: TrkA_C; pfam02080 1313172004913 TrkA-N domain; Region: TrkA_N; pfam02254 1313172004914 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1313172004915 TrkA-C domain; Region: TrkA_C; pfam02080 1313172004916 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1313172004917 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1313172004918 nucleotide binding site [chemical binding]; other site 1313172004919 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1313172004920 active site 1313172004921 catalytic triad [active] 1313172004922 oxyanion hole [active] 1313172004923 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 1313172004924 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 1313172004925 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1313172004926 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1313172004927 NAD(P) binding site [chemical binding]; other site 1313172004928 putative active site [active] 1313172004929 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172004930 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 1313172004931 substrate binding site [chemical binding]; other site 1313172004932 oxyanion hole (OAH) forming residues; other site 1313172004933 trimer interface [polypeptide binding]; other site 1313172004934 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 1313172004935 catalytic triad [active] 1313172004936 YceI-like domain; Region: YceI; pfam04264 1313172004937 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 1313172004938 PAS domain; Region: PAS_9; pfam13426 1313172004939 putative active site [active] 1313172004940 heme pocket [chemical binding]; other site 1313172004941 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172004942 GAF domain; Region: GAF; pfam01590 1313172004943 PAS domain; Region: PAS_9; pfam13426 1313172004944 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 1313172004945 PAS domain; Region: PAS_9; pfam13426 1313172004946 putative active site [active] 1313172004947 heme pocket [chemical binding]; other site 1313172004948 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172004949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172004950 metal binding site [ion binding]; metal-binding site 1313172004951 active site 1313172004952 I-site; other site 1313172004953 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172004954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172004955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172004956 metal binding site [ion binding]; metal-binding site 1313172004957 active site 1313172004958 I-site; other site 1313172004959 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172004960 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 1313172004961 putative active site [active] 1313172004962 putative metal binding residues [ion binding]; other site 1313172004963 signature motif; other site 1313172004964 putative dimer interface [polypeptide binding]; other site 1313172004965 putative phosphate binding site [ion binding]; other site 1313172004966 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1313172004967 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1313172004968 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1313172004969 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1313172004970 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 1313172004971 nucleotide binding site/active site [active] 1313172004972 HIT family signature motif; other site 1313172004973 catalytic residue [active] 1313172004974 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1313172004975 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1313172004976 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1313172004977 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 1313172004978 tetramer interface [polypeptide binding]; other site 1313172004979 TPP-binding site [chemical binding]; other site 1313172004980 heterodimer interface [polypeptide binding]; other site 1313172004981 phosphorylation loop region [posttranslational modification] 1313172004982 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1313172004983 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 1313172004984 alpha subunit interface [polypeptide binding]; other site 1313172004985 TPP binding site [chemical binding]; other site 1313172004986 heterodimer interface [polypeptide binding]; other site 1313172004987 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1313172004988 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1313172004989 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 1313172004990 E3 interaction surface; other site 1313172004991 lipoyl attachment site [posttranslational modification]; other site 1313172004992 e3 binding domain; Region: E3_binding; pfam02817 1313172004993 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1313172004994 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172004995 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1313172004996 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1313172004997 CAP-like domain; other site 1313172004998 active site 1313172004999 primary dimer interface [polypeptide binding]; other site 1313172005000 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1313172005001 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1313172005002 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 1313172005003 ATP binding site [chemical binding]; other site 1313172005004 Mg2+ binding site [ion binding]; other site 1313172005005 G-X-G motif; other site 1313172005006 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 1313172005007 anchoring element; other site 1313172005008 dimer interface [polypeptide binding]; other site 1313172005009 ATP binding site [chemical binding]; other site 1313172005010 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 1313172005011 active site 1313172005012 metal binding site [ion binding]; metal-binding site 1313172005013 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1313172005014 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1313172005015 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1313172005016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1313172005017 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172005018 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1313172005019 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172005020 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172005021 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172005022 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1313172005023 arsenical-resistance protein; Region: acr3; TIGR00832 1313172005024 Predicted transcriptional regulator [Transcription]; Region: COG2345 1313172005025 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1313172005026 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1313172005027 putative ABC transporter; Region: ycf24; CHL00085 1313172005028 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1313172005029 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1313172005030 Walker A/P-loop; other site 1313172005031 ATP binding site [chemical binding]; other site 1313172005032 Q-loop/lid; other site 1313172005033 ABC transporter signature motif; other site 1313172005034 Walker B; other site 1313172005035 D-loop; other site 1313172005036 H-loop/switch region; other site 1313172005037 FeS assembly protein SufD; Region: sufD; TIGR01981 1313172005038 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1313172005039 Domain of unknown function DUF59; Region: DUF59; cl00941 1313172005040 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 1313172005041 S-adenosylmethionine binding site [chemical binding]; other site 1313172005042 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1313172005043 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 1313172005044 dimerization interface [polypeptide binding]; other site 1313172005045 putative DNA binding site [nucleotide binding]; other site 1313172005046 putative Zn2+ binding site [ion binding]; other site 1313172005047 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1313172005048 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1313172005049 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1313172005050 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1313172005051 putative active site [active] 1313172005052 metal binding site [ion binding]; metal-binding site 1313172005053 DoxX-like family; Region: DoxX_2; pfam13564 1313172005054 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1313172005055 amidase; Provisional; Region: PRK06170 1313172005056 Amidase; Region: Amidase; cl11426 1313172005057 MASE1; Region: MASE1; cl17823 1313172005058 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1313172005059 4-coumarate--CoA ligase; Region: PLN02246 1313172005060 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 1313172005061 acyl-activating enzyme (AAE) consensus motif; other site 1313172005062 active site 1313172005063 putative CoA binding site [chemical binding]; other site 1313172005064 AMP binding site [chemical binding]; other site 1313172005065 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172005066 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172005067 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172005068 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172005069 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1313172005070 active site 1313172005071 Zn binding site [ion binding]; other site 1313172005072 trigger factor; Provisional; Region: tig; PRK01490 1313172005073 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1313172005074 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1313172005075 Clp protease; Region: CLP_protease; pfam00574 1313172005076 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1313172005077 oligomer interface [polypeptide binding]; other site 1313172005078 active site residues [active] 1313172005079 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1313172005080 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1313172005081 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1313172005082 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 1313172005083 Walker A motif; other site 1313172005084 ATP binding site [chemical binding]; other site 1313172005085 Walker B motif; other site 1313172005086 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1313172005087 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1313172005088 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1313172005089 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1313172005090 Transposase IS200 like; Region: Y1_Tnp; cl00848 1313172005091 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 1313172005092 active site 1313172005093 multimer interface [polypeptide binding]; other site 1313172005094 rod shape-determining protein MreB; Provisional; Region: PRK13927 1313172005095 MreB and similar proteins; Region: MreB_like; cd10225 1313172005096 nucleotide binding site [chemical binding]; other site 1313172005097 Mg binding site [ion binding]; other site 1313172005098 putative protofilament interaction site [polypeptide binding]; other site 1313172005099 RodZ interaction site [polypeptide binding]; other site 1313172005100 rod shape-determining protein MreC; Provisional; Region: PRK13922 1313172005101 rod shape-determining protein MreC; Region: MreC; pfam04085 1313172005102 rod shape-determining protein MreC; Region: MreC; pfam04085 1313172005103 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1313172005104 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1313172005105 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1313172005106 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1313172005107 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1313172005108 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1313172005109 B12 binding site [chemical binding]; other site 1313172005110 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1313172005111 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 1313172005112 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1313172005113 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 1313172005114 homodimer interface [polypeptide binding]; other site 1313172005115 oligonucleotide binding site [chemical binding]; other site 1313172005116 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1313172005117 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1313172005118 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 1313172005119 active site 1313172005120 substrate-binding site [chemical binding]; other site 1313172005121 metal-binding site [ion binding] 1313172005122 GTP binding site [chemical binding]; other site 1313172005123 Cold shock proteins [Transcription]; Region: CspC; COG1278 1313172005124 RNA binding site [nucleotide binding]; other site 1313172005125 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1313172005126 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1313172005127 DAK2 domain; Region: Dak2; pfam02734 1313172005128 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1313172005129 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172005130 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1313172005131 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 1313172005132 ssDNA binding site; other site 1313172005133 generic binding surface II; other site 1313172005134 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 1313172005135 putative Mg++ binding site [ion binding]; other site 1313172005136 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 1313172005137 nucleotide binding region [chemical binding]; other site 1313172005138 ATP-binding site [chemical binding]; other site 1313172005139 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1313172005140 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1313172005141 minor groove reading motif; other site 1313172005142 helix-hairpin-helix signature motif; other site 1313172005143 substrate binding pocket [chemical binding]; other site 1313172005144 active site 1313172005145 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1313172005146 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1313172005147 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 1313172005148 S-adenosylmethionine binding site [chemical binding]; other site 1313172005149 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1313172005150 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1313172005151 active site 1313172005152 (T/H)XGH motif; other site 1313172005153 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1313172005154 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1313172005155 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 1313172005156 putative NAD(P) binding site [chemical binding]; other site 1313172005157 putative active site [active] 1313172005158 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1313172005159 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172005160 hydrophobic ligand binding site; other site 1313172005161 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1313172005162 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1313172005163 putative phosphate acyltransferase; Provisional; Region: PRK05331 1313172005164 acyl carrier protein; Provisional; Region: acpP; PRK00982 1313172005165 ribonuclease III; Reviewed; Region: rnc; PRK00102 1313172005166 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 1313172005167 dimerization interface [polypeptide binding]; other site 1313172005168 active site 1313172005169 metal binding site [ion binding]; metal-binding site 1313172005170 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 1313172005171 dsRNA binding site [nucleotide binding]; other site 1313172005172 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1313172005173 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1313172005174 DNA binding site [nucleotide binding] 1313172005175 catalytic residue [active] 1313172005176 H2TH interface [polypeptide binding]; other site 1313172005177 putative catalytic residues [active] 1313172005178 turnover-facilitating residue; other site 1313172005179 intercalation triad [nucleotide binding]; other site 1313172005180 8OG recognition residue [nucleotide binding]; other site 1313172005181 putative reading head residues; other site 1313172005182 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1313172005183 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1313172005184 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1313172005185 Walker A/P-loop; other site 1313172005186 ATP binding site [chemical binding]; other site 1313172005187 Q-loop/lid; other site 1313172005188 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1313172005189 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 1313172005190 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1313172005191 ABC transporter signature motif; other site 1313172005192 Walker B; other site 1313172005193 D-loop; other site 1313172005194 H-loop/switch region; other site 1313172005195 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1313172005196 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1313172005197 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 1313172005198 P loop; other site 1313172005199 GTP binding site [chemical binding]; other site 1313172005200 signal recognition particle protein; Provisional; Region: PRK10867 1313172005201 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1313172005202 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 1313172005203 P loop; other site 1313172005204 GTP binding site [chemical binding]; other site 1313172005205 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1313172005206 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1313172005207 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1313172005208 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; cd02409 1313172005209 G-X-X-G motif; other site 1313172005210 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1313172005211 RimM N-terminal domain; Region: RimM; pfam01782 1313172005212 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1313172005213 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1313172005214 hypothetical protein; Reviewed; Region: PRK12497 1313172005215 enoyl-CoA hydratase; Provisional; Region: PRK06688 1313172005216 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 1313172005217 substrate binding site [chemical binding]; other site 1313172005218 oxyanion hole (OAH) forming residues; other site 1313172005219 trimer interface [polypeptide binding]; other site 1313172005220 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1313172005221 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1313172005222 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1313172005223 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1313172005224 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1313172005225 ornithine cyclodeaminase; Validated; Region: PRK06141 1313172005226 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1313172005227 Protein of unknown function DUF72; Region: DUF72; cl00777 1313172005228 probable F420-dependent oxidoreductase, MSMEG_2249 family; Region: F420_MSMEG_2249; TIGR03857 1313172005229 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1313172005230 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172005231 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 1313172005232 Rdx family; Region: Rdx; pfam10262 1313172005233 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1313172005234 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1313172005235 glycogen synthase; Provisional; Region: glgA; PRK00654 1313172005236 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1313172005237 ADP-binding pocket [chemical binding]; other site 1313172005238 homodimer interface [polypeptide binding]; other site 1313172005239 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 1313172005240 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1313172005241 ligand binding site; other site 1313172005242 oligomer interface; other site 1313172005243 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1313172005244 dimer interface [polypeptide binding]; other site 1313172005245 N-terminal domain interface [polypeptide binding]; other site 1313172005246 sulfate 1 binding site; other site 1313172005247 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 1313172005248 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172005249 Transglycosylase; Region: Transgly; pfam00912 1313172005250 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1313172005251 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1313172005252 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1313172005253 Putative zinc ribbon domain; Region: DUF164; pfam02591 1313172005254 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 1313172005255 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 1313172005256 catalytic core [active] 1313172005257 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172005258 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 1313172005259 active site 1313172005260 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1313172005261 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1313172005262 nucleotide binding site [chemical binding]; other site 1313172005263 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1313172005264 dinuclear metal binding motif [ion binding]; other site 1313172005265 Rubrerythrin [Energy production and conversion]; Region: COG1592 1313172005266 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1313172005267 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 1313172005268 Cysteine-rich domain; Region: CCG; pfam02754 1313172005269 Transcription factor WhiB; Region: Whib; pfam02467 1313172005270 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1313172005271 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1313172005272 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1313172005273 homoserine kinase; Provisional; Region: PRK01212 1313172005274 hypothetical protein; Validated; Region: PRK07883 1313172005275 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1313172005276 active site 1313172005277 catalytic site [active] 1313172005278 substrate binding site [chemical binding]; other site 1313172005279 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1313172005280 GIY-YIG motif/motif A; other site 1313172005281 active site 1313172005282 catalytic site [active] 1313172005283 putative DNA binding site [nucleotide binding]; other site 1313172005284 metal binding site [ion binding]; metal-binding site 1313172005285 YacP-like NYN domain; Region: NYN_YacP; cl01491 1313172005286 epoxyqueuosine reductase; Region: TIGR00276 1313172005287 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1313172005288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172005289 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 1313172005290 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172005291 hydrophobic ligand binding site; other site 1313172005292 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1313172005293 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1313172005294 nucleotide binding site [chemical binding]; other site 1313172005295 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1313172005296 dimer interface [polypeptide binding]; other site 1313172005297 substrate binding site [chemical binding]; other site 1313172005298 metal binding sites [ion binding]; metal-binding site 1313172005299 aminotransferase; Validated; Region: PRK08175 1313172005300 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 1313172005301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172005302 homodimer interface [polypeptide binding]; other site 1313172005303 catalytic residue [active] 1313172005304 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1313172005305 glycerol kinase; Provisional; Region: glpK; PRK00047 1313172005306 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1313172005307 N- and C-terminal domain interface [polypeptide binding]; other site 1313172005308 active site 1313172005309 MgATP binding site [chemical binding]; other site 1313172005310 catalytic site [active] 1313172005311 metal binding site [ion binding]; metal-binding site 1313172005312 glycerol binding site [chemical binding]; other site 1313172005313 homotetramer interface [polypeptide binding]; other site 1313172005314 homodimer interface [polypeptide binding]; other site 1313172005315 FBP binding site [chemical binding]; other site 1313172005316 protein IIAGlc interface [polypeptide binding]; other site 1313172005317 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 1313172005318 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1313172005319 active site 1313172005320 ADP/pyrophosphate binding site [chemical binding]; other site 1313172005321 dimerization interface [polypeptide binding]; other site 1313172005322 allosteric effector site; other site 1313172005323 fructose-1,6-bisphosphate binding site; other site 1313172005324 Sporulation and spore germination; Region: Germane; pfam10646 1313172005325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172005326 HAMP domain; Region: HAMP; pfam00672 1313172005327 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 1313172005328 dimer interface [polypeptide binding]; other site 1313172005329 phosphorylation site [posttranslational modification] 1313172005330 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 1313172005331 ATP binding site [chemical binding]; other site 1313172005332 Mg2+ binding site [ion binding]; other site 1313172005333 G-X-G motif; other site 1313172005334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172005335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172005336 active site 1313172005337 phosphorylation site [posttranslational modification] 1313172005338 intermolecular recognition site; other site 1313172005339 dimerization interface [polypeptide binding]; other site 1313172005340 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 1313172005341 DNA binding site [nucleotide binding] 1313172005342 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1313172005343 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 1313172005344 active site 1313172005345 dimerization interface [polypeptide binding]; other site 1313172005346 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1313172005347 active site 1313172005348 DNA polymerase IV; Validated; Region: PRK02406 1313172005349 DNA binding site [nucleotide binding] 1313172005350 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 1313172005351 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172005352 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172005353 Protein of unknown function DUF58; Region: DUF58; pfam01882 1313172005354 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172005355 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 1313172005356 Walker A motif; other site 1313172005357 ATP binding site [chemical binding]; other site 1313172005358 Walker B motif; other site 1313172005359 arginine finger; other site 1313172005360 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1313172005361 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1313172005362 nucleotide binding site [chemical binding]; other site 1313172005363 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172005364 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1313172005365 FAD binding site [chemical binding]; other site 1313172005366 substrate binding site [chemical binding]; other site 1313172005367 catalytic base [active] 1313172005368 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1313172005369 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 1313172005370 active site 1313172005371 cell division protein MraZ; Reviewed; Region: PRK00326 1313172005372 MraZ protein; Region: MraZ; pfam02381 1313172005373 MraZ protein; Region: MraZ; pfam02381 1313172005374 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1313172005375 MraW methylase family; Region: Methyltransf_5; cl17771 1313172005376 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1313172005377 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1313172005378 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1313172005379 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1313172005380 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1313172005381 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1313172005382 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1313172005383 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 1313172005384 Mg++ binding site [ion binding]; other site 1313172005385 putative catalytic motif [active] 1313172005386 putative substrate binding site [chemical binding]; other site 1313172005387 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1313172005388 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1313172005389 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1313172005390 cell division protein FtsW; Region: ftsW; TIGR02614 1313172005391 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 1313172005392 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1313172005393 homodimer interface [polypeptide binding]; other site 1313172005394 active site 1313172005395 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1313172005396 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1313172005397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1313172005398 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1313172005399 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1313172005400 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172005401 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1313172005402 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1313172005403 Cell division protein FtsQ; Region: FtsQ; pfam03799 1313172005404 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1313172005405 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 1313172005406 nucleotide binding site [chemical binding]; other site 1313172005407 SulA interaction site; other site 1313172005408 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1313172005409 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1313172005410 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1313172005411 catalytic residue [active] 1313172005412 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1313172005413 DivIVA domain; Region: DivI1A_domain; TIGR03544 1313172005414 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 1313172005415 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1313172005416 HIGH motif; other site 1313172005417 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1313172005418 active site 1313172005419 KMSKS motif; other site 1313172005420 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1313172005421 tRNA binding surface [nucleotide binding]; other site 1313172005422 anticodon binding site; other site 1313172005423 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1313172005424 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 1313172005425 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1313172005426 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 1313172005427 RNA binding surface [nucleotide binding]; other site 1313172005428 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1313172005429 active site 1313172005430 Predicted transcriptional regulator [Transcription]; Region: COG1959 1313172005431 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 1313172005432 putative Zn2+ binding site [ion binding]; other site 1313172005433 putative DNA binding site [nucleotide binding]; other site 1313172005434 dimerization interface [polypeptide binding]; other site 1313172005435 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1313172005436 PglZ domain; Region: PglZ; pfam08665 1313172005437 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 1313172005438 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1313172005439 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1313172005440 active site 1313172005441 PHP Thumb interface [polypeptide binding]; other site 1313172005442 metal binding site [ion binding]; metal-binding site 1313172005443 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 1313172005444 generic binding surface II; other site 1313172005445 generic binding surface I; other site 1313172005446 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1313172005447 FMN binding site [chemical binding]; other site 1313172005448 dimer interface [polypeptide binding]; other site 1313172005449 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1313172005450 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1313172005451 catalytic residues [active] 1313172005452 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 1313172005453 S-adenosylmethionine binding site [chemical binding]; other site 1313172005454 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1313172005455 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 1313172005456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172005457 NAD(P) binding site [chemical binding]; other site 1313172005458 active site 1313172005459 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1313172005460 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1313172005461 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172005462 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 1313172005463 active site 1313172005464 HIGH motif; other site 1313172005465 nucleotide binding site [chemical binding]; other site 1313172005466 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1313172005467 KMSKS motif; other site 1313172005468 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172005469 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172005470 putative acyl-acceptor binding pocket; other site 1313172005471 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1313172005472 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 1313172005473 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1313172005474 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 1313172005475 active site 1313172005476 dimer interface [polypeptide binding]; other site 1313172005477 motif 1; other site 1313172005478 motif 2; other site 1313172005479 motif 3; other site 1313172005480 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1313172005481 anticodon binding site; other site 1313172005482 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1313172005483 nucleotide binding site/active site [active] 1313172005484 HIT family signature motif; other site 1313172005485 catalytic residue [active] 1313172005486 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1313172005487 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1313172005488 putative acyl-acceptor binding pocket; other site 1313172005489 PAS domain S-box; Region: sensory_box; TIGR00229 1313172005490 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 1313172005491 putative active site [active] 1313172005492 heme pocket [chemical binding]; other site 1313172005493 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172005494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172005495 metal binding site [ion binding]; metal-binding site 1313172005496 active site 1313172005497 I-site; other site 1313172005498 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172005499 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172005500 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 1313172005501 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1313172005502 Peptidase family M48; Region: Peptidase_M48; cl12018 1313172005503 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 1313172005504 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1313172005505 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1313172005506 active site 1313172005507 multimer interface [polypeptide binding]; other site 1313172005508 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1313172005509 predicted active site [active] 1313172005510 catalytic triad [active] 1313172005511 hypothetical protein; Validated; Region: PRK00110 1313172005512 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 1313172005513 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172005514 catalytic triad [active] 1313172005515 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1313172005516 active site 1313172005517 putative DNA-binding cleft [nucleotide binding]; other site 1313172005518 dimer interface [polypeptide binding]; other site 1313172005519 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1313172005520 RuvA N terminal domain; Region: RuvA_N; pfam01330 1313172005521 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1313172005522 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1313172005523 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 1313172005524 Walker A motif; other site 1313172005525 ATP binding site [chemical binding]; other site 1313172005526 Walker B motif; other site 1313172005527 arginine finger; other site 1313172005528 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1313172005529 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1313172005530 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1313172005531 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1313172005532 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1313172005533 Preprotein translocase subunit; Region: YajC; pfam02699 1313172005534 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1313172005535 Protein export membrane protein; Region: SecD_SecF; cl14618 1313172005536 Preprotein translocase subunit SecF [Intracellular trafficking and secretion]; Region: SecF; COG0341 1313172005537 Protein export membrane protein; Region: SecD_SecF; pfam02355 1313172005538 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172005539 active site 1313172005540 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1313172005541 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172005542 Zn2+ binding site [ion binding]; other site 1313172005543 Mg2+ binding site [ion binding]; other site 1313172005544 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1313172005545 synthetase active site [active] 1313172005546 NTP binding site [chemical binding]; other site 1313172005547 metal binding site [ion binding]; metal-binding site 1313172005548 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 1313172005549 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1313172005550 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1313172005551 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1313172005552 dimer interface [polypeptide binding]; other site 1313172005553 motif 1; other site 1313172005554 active site 1313172005555 motif 2; other site 1313172005556 motif 3; other site 1313172005557 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 1313172005558 anticodon binding site; other site 1313172005559 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1313172005560 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 1313172005561 dimer interface [polypeptide binding]; other site 1313172005562 anticodon binding site; other site 1313172005563 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1313172005564 motif 1; other site 1313172005565 dimer interface [polypeptide binding]; other site 1313172005566 active site 1313172005567 motif 2; other site 1313172005568 GAD domain; Region: GAD; pfam02938 1313172005569 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1313172005570 active site 1313172005571 motif 3; other site 1313172005572 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 1313172005573 dimerization interface [polypeptide binding]; other site 1313172005574 putative DNA binding site [nucleotide binding]; other site 1313172005575 putative Zn2+ binding site [ion binding]; other site 1313172005576 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172005577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172005578 NAD(P) binding site [chemical binding]; other site 1313172005579 active site 1313172005580 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1313172005581 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1313172005582 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1313172005583 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1313172005584 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1313172005585 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1313172005586 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1313172005587 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 1313172005588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172005589 homodimer interface [polypeptide binding]; other site 1313172005590 catalytic residue [active] 1313172005591 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172005592 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 1313172005593 enoyl-CoA hydratase; Provisional; Region: PRK06688 1313172005594 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 1313172005595 substrate binding site [chemical binding]; other site 1313172005596 oxyanion hole (OAH) forming residues; other site 1313172005597 trimer interface [polypeptide binding]; other site 1313172005598 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172005599 FMN binding site [chemical binding]; other site 1313172005600 dimer interface [polypeptide binding]; other site 1313172005601 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1313172005602 nucleotide binding site [chemical binding]; other site 1313172005603 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 1313172005604 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1313172005605 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1313172005606 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172005607 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 1313172005608 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172005609 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 1313172005610 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1313172005611 active site 1313172005612 cytidylate kinase; Provisional; Region: cmk; PRK00023 1313172005613 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 1313172005614 CMP-binding site; other site 1313172005615 The sites determining sugar specificity; other site 1313172005616 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172005617 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172005618 putative acyl-acceptor binding pocket; other site 1313172005619 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1313172005620 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1313172005621 active site 1313172005622 metal binding site [ion binding]; metal-binding site 1313172005623 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 1313172005624 catalytic core [active] 1313172005625 pyruvate kinase; Provisional; Region: PRK05826 1313172005626 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1313172005627 domain interfaces; other site 1313172005628 active site 1313172005629 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1313172005630 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 1313172005631 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 1313172005632 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1313172005633 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1313172005634 GTP binding site; other site 1313172005635 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 1313172005636 active site residue [active] 1313172005637 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1313172005638 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1313172005639 catalytic site [active] 1313172005640 putative active site [active] 1313172005641 putative substrate binding site [chemical binding]; other site 1313172005642 HRDC domain; Region: HRDC; pfam00570 1313172005643 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1313172005644 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172005645 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 1313172005646 Magnesium ion binding site [ion binding]; other site 1313172005647 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1313172005648 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1313172005649 motif 1; other site 1313172005650 active site 1313172005651 motif 2; other site 1313172005652 motif 3; other site 1313172005653 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1313172005654 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1313172005655 YceG-like family; Region: YceG; pfam02618 1313172005656 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1313172005657 dimerization interface [polypeptide binding]; other site 1313172005658 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1313172005659 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1313172005660 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1313172005661 NAD(P) binding site [chemical binding]; other site 1313172005662 shikimate binding site; other site 1313172005663 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1313172005664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1313172005665 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 1313172005666 dimerization interface [polypeptide binding]; other site 1313172005667 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1313172005668 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1313172005669 Tetramer interface [polypeptide binding]; other site 1313172005670 active site 1313172005671 FMN-binding site [chemical binding]; other site 1313172005672 shikimate kinase; Reviewed; Region: aroK; PRK00131 1313172005673 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 1313172005674 ADP binding site [chemical binding]; other site 1313172005675 magnesium binding site [ion binding]; other site 1313172005676 putative shikimate binding site; other site 1313172005677 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1313172005678 active site 1313172005679 dimer interface [polypeptide binding]; other site 1313172005680 metal binding site [ion binding]; metal-binding site 1313172005681 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1313172005682 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1313172005683 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1313172005684 active site 1313172005685 elongation factor P; Validated; Region: PRK00529 1313172005686 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1313172005687 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 1313172005688 RNA binding site [nucleotide binding]; other site 1313172005689 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 1313172005690 RNA binding site [nucleotide binding]; other site 1313172005691 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1313172005692 putative RNA binding site [nucleotide binding]; other site 1313172005693 Predicted membrane protein [Function unknown]; Region: COG3463 1313172005694 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 1313172005695 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172005696 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 1313172005697 active site 1313172005698 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 1313172005699 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172005700 active site 1313172005701 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1313172005702 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1313172005703 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1313172005704 dihydroorotase; Validated; Region: pyrC; PRK09357 1313172005705 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 1313172005706 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 1313172005707 active site 1313172005708 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1313172005709 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1313172005710 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1313172005711 catalytic site [active] 1313172005712 subunit interface [polypeptide binding]; other site 1313172005713 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1313172005714 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1313172005715 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172005716 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1313172005717 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1313172005718 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172005719 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1313172005720 substrate binding site [chemical binding]; other site 1313172005721 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172005722 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1313172005723 phosphate binding site [ion binding]; other site 1313172005724 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1313172005725 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 1313172005726 catalytic site [active] 1313172005727 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1313172005728 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1313172005729 Flavoprotein; Region: Flavoprotein; pfam02441 1313172005730 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1313172005731 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1313172005732 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1313172005733 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1313172005734 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1313172005735 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1313172005736 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1313172005737 Part of AAA domain; Region: AAA_19; pfam13245 1313172005738 Family description; Region: UvrD_C_2; pfam13538 1313172005739 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 1313172005740 S-adenosylmethionine binding site [chemical binding]; other site 1313172005741 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 1313172005742 active site 1313172005743 catalytic residues [active] 1313172005744 metal binding site [ion binding]; metal-binding site 1313172005745 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1313172005746 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1313172005747 putative active site [active] 1313172005748 substrate binding site [chemical binding]; other site 1313172005749 putative cosubstrate binding site; other site 1313172005750 catalytic site [active] 1313172005751 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1313172005752 substrate binding site [chemical binding]; other site 1313172005753 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1313172005754 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 1313172005755 putative RNA binding site [nucleotide binding]; other site 1313172005756 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 1313172005757 S-adenosylmethionine binding site [chemical binding]; other site 1313172005758 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 1313172005759 MPT binding site; other site 1313172005760 trimer interface [polypeptide binding]; other site 1313172005761 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1313172005762 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1313172005763 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1313172005764 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1313172005765 RNA binding site [nucleotide binding]; other site 1313172005766 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 1313172005767 active site 1313172005768 DNA binding site [nucleotide binding] 1313172005769 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 1313172005770 S-adenosylmethionine binding site [chemical binding]; other site 1313172005771 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1313172005772 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1313172005773 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1313172005774 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1313172005775 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1313172005776 23S rRNA binding site [nucleotide binding]; other site 1313172005777 L21 binding site [polypeptide binding]; other site 1313172005778 L13 binding site [polypeptide binding]; other site 1313172005779 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1313172005780 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1313172005781 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1313172005782 putative deacylase active site [active] 1313172005783 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1313172005784 dimer interface [polypeptide binding]; other site 1313172005785 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172005786 ligand binding site [chemical binding]; other site 1313172005787 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1313172005788 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 1313172005789 dimer interface [polypeptide binding]; other site 1313172005790 motif 1; other site 1313172005791 active site 1313172005792 motif 2; other site 1313172005793 motif 3; other site 1313172005794 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1313172005795 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 1313172005796 putative tRNA-binding site [nucleotide binding]; other site 1313172005797 B3/4 domain; Region: B3_4; pfam03483 1313172005798 tRNA synthetase B5 domain; Region: B5; smart00874 1313172005799 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 1313172005800 dimer interface [polypeptide binding]; other site 1313172005801 motif 1; other site 1313172005802 motif 3; other site 1313172005803 motif 2; other site 1313172005804 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1313172005805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1313172005806 ACT domain; Region: ACT_3; pfam10000 1313172005807 Family description; Region: ACT_7; pfam13840 1313172005808 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1313172005809 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1313172005810 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1313172005811 TrkA-N domain; Region: TrkA_N; pfam02254 1313172005812 TrkA-C domain; Region: TrkA_C; pfam02080 1313172005813 hypothetical protein; Validated; Region: PRK00228 1313172005814 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 1313172005815 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1313172005816 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1313172005817 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 1313172005818 feedback inhibition sensing region; other site 1313172005819 homohexameric interface [polypeptide binding]; other site 1313172005820 nucleotide binding site [chemical binding]; other site 1313172005821 N-acetyl-L-glutamate binding site [chemical binding]; other site 1313172005822 acetylornithine aminotransferase; Provisional; Region: PRK02627 1313172005823 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 1313172005824 inhibitor-cofactor binding pocket; inhibition site 1313172005825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172005826 catalytic residue [active] 1313172005827 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1313172005828 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1313172005829 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1313172005830 arginine repressor; Provisional; Region: PRK03341 1313172005831 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1313172005832 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1313172005833 argininosuccinate lyase; Provisional; Region: PRK00855 1313172005834 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1313172005835 active sites [active] 1313172005836 tetramer interface [polypeptide binding]; other site 1313172005837 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1313172005838 active site 1313172005839 DNA binding site [nucleotide binding] 1313172005840 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1313172005841 classical (c) SDRs; Region: SDR_c; cd05233 1313172005842 NAD(P) binding site [chemical binding]; other site 1313172005843 active site 1313172005844 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1313172005845 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1313172005846 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 1313172005847 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1313172005848 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1313172005849 active site 1313172005850 HIGH motif; other site 1313172005851 dimer interface [polypeptide binding]; other site 1313172005852 KMSKS motif; other site 1313172005853 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172005854 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1313172005855 intersubunit interface [polypeptide binding]; other site 1313172005856 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1313172005857 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1313172005858 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1313172005859 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172005860 ABC-ATPase subunit interface; other site 1313172005861 dimer interface [polypeptide binding]; other site 1313172005862 putative PBP binding regions; other site 1313172005863 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1313172005864 metal binding site 2 [ion binding]; metal-binding site 1313172005865 putative DNA binding helix; other site 1313172005866 metal binding site 1 [ion binding]; metal-binding site 1313172005867 dimer interface [polypeptide binding]; other site 1313172005868 structural Zn2+ binding site [ion binding]; other site 1313172005869 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1313172005870 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172005871 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1313172005872 PAC2 family; Region: PAC2; pfam09754 1313172005873 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1313172005874 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 1313172005875 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1313172005876 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1313172005877 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1313172005878 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1313172005879 Competence protein; Region: Competence; pfam03772 1313172005880 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 1313172005881 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1313172005882 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1313172005883 GTP-binding protein LepA; Provisional; Region: PRK05433 1313172005884 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1313172005885 G1 box; other site 1313172005886 putative GEF interaction site [polypeptide binding]; other site 1313172005887 GTP/Mg2+ binding site [chemical binding]; other site 1313172005888 Switch I region; other site 1313172005889 G2 box; other site 1313172005890 G3 box; other site 1313172005891 Switch II region; other site 1313172005892 G4 box; other site 1313172005893 G5 box; other site 1313172005894 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1313172005895 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 1313172005896 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1313172005897 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1313172005898 Coenzyme A binding pocket [chemical binding]; other site 1313172005899 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1313172005900 cyclase homology domain; Region: CHD; cd07302 1313172005901 nucleotidyl binding site; other site 1313172005902 metal binding site [ion binding]; metal-binding site 1313172005903 dimer interface [polypeptide binding]; other site 1313172005904 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1313172005905 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 1313172005906 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1313172005907 chaperone protein DnaJ; Provisional; Region: PRK14276 1313172005908 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 1313172005909 HSP70 interaction site [polypeptide binding]; other site 1313172005910 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1313172005911 Zn binding sites [ion binding]; other site 1313172005912 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1313172005913 dimer interface [polypeptide binding]; other site 1313172005914 RNA methyltransferase, RsmE family; Region: TIGR00046 1313172005915 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1313172005916 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1313172005917 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 1313172005918 non-specific DNA binding site [nucleotide binding]; other site 1313172005919 salt bridge; other site 1313172005920 sequence-specific DNA binding site [nucleotide binding]; other site 1313172005921 coproporphyrinogen III oxidase; Validated; Region: PRK05628 1313172005922 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172005923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172005924 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 1313172005925 DNA binding residues [nucleotide binding] 1313172005926 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172005927 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172005928 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172005929 active site 1313172005930 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1313172005931 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1313172005932 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1313172005933 Citrate synthase; Region: Citrate_synt; pfam00285 1313172005934 oxalacetate binding site [chemical binding]; other site 1313172005935 citrylCoA binding site [chemical binding]; other site 1313172005936 coenzyme A binding site [chemical binding]; other site 1313172005937 catalytic triad [active] 1313172005938 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 1313172005939 substrate binding site [chemical binding]; other site 1313172005940 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1313172005941 oxyanion hole (OAH) forming residues; other site 1313172005942 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1313172005943 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1313172005944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1313172005945 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 1313172005946 dimerization interface [polypeptide binding]; other site 1313172005947 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1313172005948 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 1313172005949 motif II; other site 1313172005950 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172005951 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172005952 putative acyl-acceptor binding pocket; other site 1313172005953 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 1313172005954 dUMP phosphatase; Provisional; Region: PRK09449 1313172005955 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 1313172005956 motif II; other site 1313172005957 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 1313172005958 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1313172005959 dimer interface [polypeptide binding]; other site 1313172005960 active site 1313172005961 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1313172005962 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1313172005963 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1313172005964 NAD(P) binding site [chemical binding]; other site 1313172005965 homotetramer interface [polypeptide binding]; other site 1313172005966 homodimer interface [polypeptide binding]; other site 1313172005967 active site 1313172005968 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1313172005969 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 1313172005970 dimer interface [polypeptide binding]; other site 1313172005971 active site 1313172005972 CoA binding pocket [chemical binding]; other site 1313172005973 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1313172005974 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1313172005975 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1313172005976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172005977 active site 1313172005978 phosphorylation site [posttranslational modification] 1313172005979 intermolecular recognition site; other site 1313172005980 dimerization interface [polypeptide binding]; other site 1313172005981 ANTAR domain; Region: ANTAR; pfam03861 1313172005982 DNA polymerase I; Provisional; Region: PRK05755 1313172005983 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1313172005984 active site 1313172005985 metal binding site 1 [ion binding]; metal-binding site 1313172005986 putative 5' ssDNA interaction site; other site 1313172005987 metal binding site 3; metal-binding site 1313172005988 metal binding site 2 [ion binding]; metal-binding site 1313172005989 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1313172005990 putative DNA binding site [nucleotide binding]; other site 1313172005991 putative metal binding site [ion binding]; other site 1313172005992 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1313172005993 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1313172005994 active site 1313172005995 DNA binding site [nucleotide binding] 1313172005996 catalytic site [active] 1313172005997 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 1313172005998 S-adenosylmethionine binding site [chemical binding]; other site 1313172005999 AMP-binding domain protein; Validated; Region: PRK08315 1313172006000 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172006001 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172006002 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1313172006003 acyl-activating enzyme (AAE) consensus motif; other site 1313172006004 putative AMP binding site [chemical binding]; other site 1313172006005 putative active site [active] 1313172006006 acyl-activating enzyme (AAE) consensus motif; other site 1313172006007 putative CoA binding site [chemical binding]; other site 1313172006008 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1313172006009 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1313172006010 RNA binding site [nucleotide binding]; other site 1313172006011 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1313172006012 RNA binding site [nucleotide binding]; other site 1313172006013 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1313172006014 RNA binding site [nucleotide binding]; other site 1313172006015 S1 RNA binding domain; Region: S1; pfam00575 1313172006016 RNA binding site [nucleotide binding]; other site 1313172006017 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1313172006018 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 1313172006019 CoA-binding site [chemical binding]; other site 1313172006020 ATP-binding [chemical binding]; other site 1313172006021 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 1313172006022 putative active site pocket [active] 1313172006023 dimerization interface [polypeptide binding]; other site 1313172006024 putative catalytic residue [active] 1313172006025 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172006026 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172006027 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; cl17355 1313172006028 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1313172006029 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1313172006030 Domain of unknown function DUF21; Region: DUF21; pfam01595 1313172006031 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 1313172006032 Transporter associated domain; Region: CorC_HlyC; smart01091 1313172006033 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1313172006034 Domain of unknown function DUF21; Region: DUF21; pfam01595 1313172006035 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 1313172006036 Transporter associated domain; Region: CorC_HlyC; smart01091 1313172006037 excinuclease ABC subunit B; Provisional; Region: PRK05298 1313172006038 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 1313172006039 ATP binding site [chemical binding]; other site 1313172006040 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 1313172006041 nucleotide binding region [chemical binding]; other site 1313172006042 ATP-binding site [chemical binding]; other site 1313172006043 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1313172006044 UvrB/uvrC motif; Region: UVR; pfam02151 1313172006045 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172006046 HYR domain; Region: HYR; pfam02494 1313172006047 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1313172006048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172006049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172006050 metal binding site [ion binding]; metal-binding site 1313172006051 active site 1313172006052 I-site; other site 1313172006053 CotH protein; Region: CotH; pfam08757 1313172006054 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1313172006055 putative metal binding residues [ion binding]; other site 1313172006056 signature motif; other site 1313172006057 dimer interface [polypeptide binding]; other site 1313172006058 active site 1313172006059 polyP binding site; other site 1313172006060 substrate binding site [chemical binding]; other site 1313172006061 acceptor-phosphate pocket; other site 1313172006062 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1313172006063 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1313172006064 active site 1313172006065 catalytic site [active] 1313172006066 Cellulose binding domain; Region: CBM_2; pfam00553 1313172006067 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1313172006068 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1313172006069 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1313172006070 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1313172006071 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1313172006072 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1313172006073 GIY-YIG motif/motif A; other site 1313172006074 active site 1313172006075 catalytic site [active] 1313172006076 putative DNA binding site [nucleotide binding]; other site 1313172006077 metal binding site [ion binding]; metal-binding site 1313172006078 UvrB/uvrC motif; Region: UVR; pfam02151 1313172006079 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1313172006080 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 1313172006081 PAS domain; Region: PAS_9; pfam13426 1313172006082 putative active site [active] 1313172006083 heme pocket [chemical binding]; other site 1313172006084 PAS domain S-box; Region: sensory_box; TIGR00229 1313172006085 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 1313172006086 putative active site [active] 1313172006087 heme pocket [chemical binding]; other site 1313172006088 PAS fold; Region: PAS_4; pfam08448 1313172006089 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 1313172006090 putative active site [active] 1313172006091 heme pocket [chemical binding]; other site 1313172006092 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172006093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172006094 metal binding site [ion binding]; metal-binding site 1313172006095 active site 1313172006096 I-site; other site 1313172006097 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172006098 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 1313172006099 S-adenosylmethionine binding site [chemical binding]; other site 1313172006100 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1313172006101 shikimate kinase; Provisional; Region: PRK13947 1313172006102 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1313172006103 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1313172006104 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1313172006105 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1313172006106 Phosphoglycerate kinase; Region: PGK; pfam00162 1313172006107 substrate binding site [chemical binding]; other site 1313172006108 hinge regions; other site 1313172006109 ADP binding site [chemical binding]; other site 1313172006110 catalytic site [active] 1313172006111 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 1313172006112 triosephosphate isomerase; Provisional; Region: PRK14567 1313172006113 substrate binding site [chemical binding]; other site 1313172006114 dimer interface [polypeptide binding]; other site 1313172006115 catalytic triad [active] 1313172006116 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 1313172006117 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1313172006118 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1313172006119 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 1313172006120 dimer interface [polypeptide binding]; other site 1313172006121 conserved gate region; other site 1313172006122 putative PBP binding loops; other site 1313172006123 ABC-ATPase subunit interface; other site 1313172006124 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1313172006125 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 1313172006126 dimer interface [polypeptide binding]; other site 1313172006127 conserved gate region; other site 1313172006128 putative PBP binding loops; other site 1313172006129 ABC-ATPase subunit interface; other site 1313172006130 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172006131 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172006132 Walker A/P-loop; other site 1313172006133 ATP binding site [chemical binding]; other site 1313172006134 Q-loop/lid; other site 1313172006135 ABC transporter signature motif; other site 1313172006136 Walker B; other site 1313172006137 D-loop; other site 1313172006138 H-loop/switch region; other site 1313172006139 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1313172006140 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1313172006141 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172006142 Walker A/P-loop; other site 1313172006143 ATP binding site [chemical binding]; other site 1313172006144 Q-loop/lid; other site 1313172006145 ABC transporter signature motif; other site 1313172006146 Walker B; other site 1313172006147 D-loop; other site 1313172006148 H-loop/switch region; other site 1313172006149 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1313172006150 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1313172006151 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172006152 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172006153 metal binding site [ion binding]; metal-binding site 1313172006154 active site 1313172006155 I-site; other site 1313172006156 Hemerythrin-like domain; Region: Hr-like; cd12108 1313172006157 BioY family; Region: BioY; pfam02632 1313172006158 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1313172006159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1313172006160 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1313172006161 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172006162 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172006163 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1313172006164 metal binding site 2 [ion binding]; metal-binding site 1313172006165 putative DNA binding helix; other site 1313172006166 metal binding site 1 [ion binding]; metal-binding site 1313172006167 dimer interface [polypeptide binding]; other site 1313172006168 structural Zn2+ binding site [ion binding]; other site 1313172006169 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172006170 intersubunit interface [polypeptide binding]; other site 1313172006171 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172006172 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1313172006173 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1313172006174 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172006175 ABC-ATPase subunit interface; other site 1313172006176 dimer interface [polypeptide binding]; other site 1313172006177 putative PBP binding regions; other site 1313172006178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172006179 NAD(P) binding site [chemical binding]; other site 1313172006180 active site 1313172006181 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1313172006182 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 1313172006183 FMN binding site [chemical binding]; other site 1313172006184 substrate binding site [chemical binding]; other site 1313172006185 putative catalytic residue [active] 1313172006186 monocarboxylate transporter 1; Region: 2A0113; TIGR00892 1313172006187 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 1313172006188 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1313172006189 AzlC protein; Region: AzlC; pfam03591 1313172006190 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1313172006191 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1313172006192 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172006193 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 1313172006194 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 1313172006195 active site 1 [active] 1313172006196 active site 2 [active] 1313172006197 selenophosphate synthetase; Provisional; Region: PRK00943 1313172006198 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1313172006199 dimerization interface [polypeptide binding]; other site 1313172006200 putative ATP binding site [chemical binding]; other site 1313172006201 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1313172006202 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1313172006203 active site 1313172006204 Zn binding site [ion binding]; other site 1313172006205 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1313172006206 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1313172006207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172006208 NAD(P) binding site [chemical binding]; other site 1313172006209 active site 1313172006210 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1313172006211 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1313172006212 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1313172006213 putative RNA binding site [nucleotide binding]; other site 1313172006214 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 1313172006215 S-adenosylmethionine binding site [chemical binding]; other site 1313172006216 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172006217 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1313172006218 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1313172006219 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1313172006220 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1313172006221 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172006222 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1313172006223 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1313172006224 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1313172006225 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1313172006226 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172006227 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1313172006228 NAD binding site [chemical binding]; other site 1313172006229 putative substrate binding site 2 [chemical binding]; other site 1313172006230 putative substrate binding site 1 [chemical binding]; other site 1313172006231 active site 1313172006232 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1313172006233 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1313172006234 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 1313172006235 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 1313172006236 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1313172006237 Interdomain contacts; other site 1313172006238 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1313172006239 Interdomain contacts; other site 1313172006240 Cytokine receptor motif; other site 1313172006241 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 1313172006242 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172006243 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1313172006244 active site 1313172006245 ATP binding site [chemical binding]; other site 1313172006246 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172006247 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 1313172006248 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172006249 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1313172006250 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1313172006251 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1313172006252 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172006253 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 1313172006254 NAD binding site [chemical binding]; other site 1313172006255 homotetramer interface [polypeptide binding]; other site 1313172006256 homodimer interface [polypeptide binding]; other site 1313172006257 active site 1313172006258 substrate binding site [chemical binding]; other site 1313172006259 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1313172006260 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 1313172006261 Cl- selectivity filter; other site 1313172006262 Cl- binding residues [ion binding]; other site 1313172006263 pore gating glutamate residue; other site 1313172006264 dimer interface [polypeptide binding]; other site 1313172006265 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1313172006266 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 1313172006267 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1313172006268 carboxyltransferase (CT) interaction site; other site 1313172006269 biotinylation site [posttranslational modification]; other site 1313172006270 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1313172006271 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1313172006272 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172006273 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172006274 putative acyl-acceptor binding pocket; other site 1313172006275 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 1313172006276 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1313172006277 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 1313172006278 NAD(P) binding site [chemical binding]; other site 1313172006279 fatty acyl-CoA reductase; Region: PLN02996 1313172006280 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 1313172006281 putative NAD(P) binding site [chemical binding]; other site 1313172006282 active site 1313172006283 putative substrate binding site [chemical binding]; other site 1313172006284 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 1313172006285 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1313172006286 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1313172006287 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172006288 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172006289 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1313172006290 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1313172006291 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1313172006292 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1313172006293 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1313172006294 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1313172006295 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 1313172006296 H+ Antiporter protein; Region: 2A0121; TIGR00900 1313172006297 putative substrate translocation pore; other site 1313172006298 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1313172006299 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172006300 TIGR03084 family protein; Region: TIGR03084 1313172006301 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172006302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172006303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172006304 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1313172006305 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1313172006306 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1313172006307 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1313172006308 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172006309 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1313172006310 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 1313172006311 carboxyltransferase (CT) interaction site; other site 1313172006312 biotinylation site [posttranslational modification]; other site 1313172006313 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1313172006314 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 1313172006315 Protein of unknown function (DUF971); Region: DUF971; pfam06155 1313172006316 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1313172006317 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172006318 hypothetical protein; Provisional; Region: PRK09256 1313172006319 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172006320 Cytochrome P450; Region: p450; cl12078 1313172006321 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1313172006322 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1313172006323 hexamer interface [polypeptide binding]; other site 1313172006324 ligand binding site [chemical binding]; other site 1313172006325 putative active site [active] 1313172006326 NAD(P) binding site [chemical binding]; other site 1313172006327 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1313172006328 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1313172006329 putative DNA binding site [nucleotide binding]; other site 1313172006330 putative Zn2+ binding site [ion binding]; other site 1313172006331 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1313172006332 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 1313172006333 HSP70 interaction site [polypeptide binding]; other site 1313172006334 Transcription factor WhiB; Region: Whib; pfam02467 1313172006335 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1313172006336 hydrophobic ligand binding site; other site 1313172006337 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172006338 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172006339 Predicted transcriptional regulator [Transcription]; Region: COG2378 1313172006340 WYL domain; Region: WYL; pfam13280 1313172006341 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1313172006342 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1313172006343 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1313172006344 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1313172006345 Walker A/P-loop; other site 1313172006346 ATP binding site [chemical binding]; other site 1313172006347 Q-loop/lid; other site 1313172006348 ABC transporter signature motif; other site 1313172006349 Walker B; other site 1313172006350 D-loop; other site 1313172006351 H-loop/switch region; other site 1313172006352 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172006353 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172006354 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172006355 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1313172006356 putative active site [active] 1313172006357 putative substrate binding site [chemical binding]; other site 1313172006358 ATP binding site [chemical binding]; other site 1313172006359 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1313172006360 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1313172006361 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 1313172006362 FeS/SAM binding site; other site 1313172006363 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1313172006364 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1313172006365 Zn binding site [ion binding]; other site 1313172006366 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 1313172006367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172006368 Coenzyme A binding pocket [chemical binding]; other site 1313172006369 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 1313172006370 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 1313172006371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172006372 homodimer interface [polypeptide binding]; other site 1313172006373 catalytic residue [active] 1313172006374 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1313172006375 putative active site pocket [active] 1313172006376 4-fold oligomerization interface [polypeptide binding]; other site 1313172006377 metal binding residues [ion binding]; metal-binding site 1313172006378 3-fold/trimer interface [polypeptide binding]; other site 1313172006379 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1313172006380 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1313172006381 putative active site [active] 1313172006382 oxyanion strand; other site 1313172006383 catalytic triad [active] 1313172006384 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 1313172006385 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1313172006386 catalytic residues [active] 1313172006387 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 1313172006388 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1313172006389 substrate binding site [chemical binding]; other site 1313172006390 glutamase interaction surface [polypeptide binding]; other site 1313172006391 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 1313172006392 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1313172006393 substrate binding site [chemical binding]; other site 1313172006394 oxyanion hole (OAH) forming residues; other site 1313172006395 trimer interface [polypeptide binding]; other site 1313172006396 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 1313172006397 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1313172006398 active site 1313172006399 catalytic tetrad [active] 1313172006400 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1313172006401 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 1313172006402 oligomerisation interface [polypeptide binding]; other site 1313172006403 mobile loop; other site 1313172006404 roof hairpin; other site 1313172006405 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1313172006406 anthranilate synthase component I; Provisional; Region: PRK13571 1313172006407 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1313172006408 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1313172006409 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1313172006410 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1313172006411 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 1313172006412 Peptidase family M50; Region: Peptidase_M50; pfam02163 1313172006413 active site 1313172006414 putative substrate binding region [chemical binding]; other site 1313172006415 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1313172006416 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1313172006417 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1313172006418 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1313172006419 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1313172006420 DNA primase, catalytic core; Region: dnaG; TIGR01391 1313172006421 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1313172006422 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1313172006423 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 1313172006424 active site 1313172006425 metal binding site [ion binding]; metal-binding site 1313172006426 interdomain interaction site; other site 1313172006427 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1313172006428 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1313172006429 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1313172006430 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172006431 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1313172006432 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 1313172006433 DNA binding residues [nucleotide binding] 1313172006434 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1313172006435 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1313172006436 active site 1313172006437 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172006438 Mitomycin C resistance protein (MRD); Region: MRD; cd07235 1313172006439 dimer interface [polypeptide binding]; other site 1313172006440 ligand binding site [chemical binding]; other site 1313172006441 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1313172006442 peptide synthase; Validated; Region: PRK05691 1313172006443 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1313172006444 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1313172006445 uridine phosphorylase; Provisional; Region: PRK11178 1313172006446 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1313172006447 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1313172006448 intersubunit interface [polypeptide binding]; other site 1313172006449 active site 1313172006450 catalytic residue [active] 1313172006451 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1313172006452 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1313172006453 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1313172006454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172006455 Coenzyme A binding pocket [chemical binding]; other site 1313172006456 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1313172006457 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 1313172006458 substrate binding site [chemical binding]; other site 1313172006459 hexamer interface [polypeptide binding]; other site 1313172006460 metal binding site [ion binding]; metal-binding site 1313172006461 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1313172006462 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 1313172006463 Walker A motif; other site 1313172006464 ATP binding site [chemical binding]; other site 1313172006465 Walker B motif; other site 1313172006466 arginine finger; other site 1313172006467 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 1313172006468 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1313172006469 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1313172006470 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 1313172006471 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 1313172006472 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 1313172006473 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1313172006474 Domain of unknown function (DUF955); Region: DUF955; cl01076 1313172006475 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172006476 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1313172006477 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1313172006478 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 1313172006479 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1313172006480 phage tail protein domain; Region: tail_TIGR02242 1313172006481 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172006482 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1313172006483 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172006484 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172006485 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172006486 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172006487 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172006488 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 1313172006489 Septum formation; Region: Septum_form; pfam13845 1313172006490 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1313172006491 TRAM domain; Region: TRAM; pfam01938 1313172006492 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1313172006493 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1313172006494 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1313172006495 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1313172006496 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1313172006497 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1313172006498 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1313172006499 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 1313172006500 Walker A motif; other site 1313172006501 ATP binding site [chemical binding]; other site 1313172006502 Walker B motif; other site 1313172006503 arginine finger; other site 1313172006504 Peptidase family M41; Region: Peptidase_M41; pfam01434 1313172006505 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1313172006506 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1313172006507 active site 1313172006508 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 1313172006509 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1313172006510 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 1313172006511 TPP-binding site [chemical binding]; other site 1313172006512 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1313172006513 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1313172006514 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1313172006515 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 1313172006516 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 1313172006517 motif II; other site 1313172006518 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 1313172006519 S1 RNA binding domain; Region: S1; pfam00575 1313172006520 RNA binding site [nucleotide binding]; other site 1313172006521 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 1313172006522 putative catalytic site [active] 1313172006523 putative phosphate binding site [ion binding]; other site 1313172006524 active site 1313172006525 metal binding site A [ion binding]; metal-binding site 1313172006526 DNA binding site [nucleotide binding] 1313172006527 putative AP binding site [nucleotide binding]; other site 1313172006528 putative metal binding site B [ion binding]; other site 1313172006529 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1313172006530 Family description; Region: UvrD_C_2; pfam13538 1313172006531 HRDC domain; Region: HRDC; pfam00570 1313172006532 Bacterial PH domain; Region: DUF304; pfam03703 1313172006533 Short C-terminal domain; Region: SHOCT; pfam09851 1313172006534 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172006535 intersubunit interface [polypeptide binding]; other site 1313172006536 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1313172006537 acyl transferase; Provisional; Region: luxD; PRK13604 1313172006538 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1313172006539 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1313172006540 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172006541 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172006542 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1313172006543 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1313172006544 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172006545 Zn2+ binding site [ion binding]; other site 1313172006546 Mg2+ binding site [ion binding]; other site 1313172006547 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1313172006548 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1313172006549 GTP1/OBG; Region: GTP1_OBG; pfam01018 1313172006550 Obg GTPase; Region: Obg; cd01898 1313172006551 G1 box; other site 1313172006552 GTP/Mg2+ binding site [chemical binding]; other site 1313172006553 Switch I region; other site 1313172006554 G2 box; other site 1313172006555 G3 box; other site 1313172006556 Switch II region; other site 1313172006557 G4 box; other site 1313172006558 G5 box; other site 1313172006559 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1313172006560 gamma-glutamyl kinase; Provisional; Region: PRK05429 1313172006561 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 1313172006562 nucleotide binding site [chemical binding]; other site 1313172006563 homotetrameric interface [polypeptide binding]; other site 1313172006564 putative phosphate binding site [ion binding]; other site 1313172006565 putative allosteric binding site; other site 1313172006566 PUA domain; Region: PUA; pfam01472 1313172006567 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1313172006568 integral membrane protein MviN; Region: mviN; TIGR01695 1313172006569 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1313172006570 chromosome segregation protein; Provisional; Region: PRK02224 1313172006571 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1313172006572 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 1313172006573 Walker A motif; other site 1313172006574 ATP binding site [chemical binding]; other site 1313172006575 Walker B motif; other site 1313172006576 arginine finger; other site 1313172006577 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1313172006578 TIGR03086 family protein; Region: TIGR03086 1313172006579 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172006580 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172006581 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 1313172006582 Walker A motif; other site 1313172006583 ATP binding site [chemical binding]; other site 1313172006584 Walker B motif; other site 1313172006585 arginine finger; other site 1313172006586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1313172006587 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1313172006588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1313172006589 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1313172006590 PemK-like protein; Region: PemK; cl00995 1313172006591 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1313172006592 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1313172006593 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 1313172006594 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 1313172006595 putative FMN binding site [chemical binding]; other site 1313172006596 putative dimer interface [polypeptide binding]; other site 1313172006597 topology modulation protein; Reviewed; Region: PRK08118 1313172006598 AAA domain; Region: AAA_17; pfam13207 1313172006599 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1313172006600 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172006601 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1313172006602 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1313172006603 active site 1313172006604 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 1313172006605 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1313172006606 active site 1313172006607 substrate binding site [chemical binding]; other site 1313172006608 cosubstrate binding site; other site 1313172006609 catalytic site [active] 1313172006610 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1313172006611 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1313172006612 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1313172006613 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172006614 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1313172006615 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1313172006616 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 1313172006617 dimerization interface [polypeptide binding]; other site 1313172006618 putative ATP binding site [chemical binding]; other site 1313172006619 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 1313172006620 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 1313172006621 active site 1313172006622 tetramer interface [polypeptide binding]; other site 1313172006623 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172006624 active site 1313172006625 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1313172006626 active site 1313172006627 ATP binding site [chemical binding]; other site 1313172006628 substrate binding site [chemical binding]; other site 1313172006629 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1313172006630 conserved cys residue [active] 1313172006631 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 1313172006632 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 1313172006633 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 1313172006634 dimerization interface [polypeptide binding]; other site 1313172006635 ATP binding site [chemical binding]; other site 1313172006636 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 1313172006637 dimerization interface [polypeptide binding]; other site 1313172006638 ATP binding site [chemical binding]; other site 1313172006639 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 1313172006640 catalytic core [active] 1313172006641 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172006642 classical (c) SDRs; Region: SDR_c; cd05233 1313172006643 NAD(P) binding site [chemical binding]; other site 1313172006644 active site 1313172006645 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1313172006646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172006647 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1313172006648 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172006649 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 1313172006650 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1313172006651 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 1313172006652 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172006653 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172006654 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 1313172006655 SET domain; Region: SET; pfam00856 1313172006656 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1313172006657 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1313172006658 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1313172006659 Formamidopyrimidine-DNA glycosylase N-terminal domain; Region: Fapy_DNA_glyco; pfam01149 1313172006660 DNA binding site [nucleotide binding] 1313172006661 catalytic residue [active] 1313172006662 H2TH interface [polypeptide binding]; other site 1313172006663 putative catalytic residues [active] 1313172006664 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1313172006665 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 1313172006666 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1313172006667 active site 1313172006668 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1313172006669 peptide synthase; Provisional; Region: PRK09274 1313172006670 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 1313172006671 acyl-activating enzyme (AAE) consensus motif; other site 1313172006672 putative AMP binding site [chemical binding]; other site 1313172006673 putative active site [active] 1313172006674 putative CoA binding site [chemical binding]; other site 1313172006675 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172006676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172006677 NAD(P) binding site [chemical binding]; other site 1313172006678 active site 1313172006679 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1313172006680 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 1313172006681 putative di-iron ligands [ion binding]; other site 1313172006682 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 1313172006683 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1313172006684 putative di-iron ligands [ion binding]; other site 1313172006685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172006686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172006687 metal binding site [ion binding]; metal-binding site 1313172006688 active site 1313172006689 I-site; other site 1313172006690 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172006691 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1313172006692 PhoH-like protein; Region: PhoH; pfam02562 1313172006693 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1313172006694 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172006695 classical (c) SDRs; Region: SDR_c; cd05233 1313172006696 NAD(P) binding site [chemical binding]; other site 1313172006697 active site 1313172006698 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172006699 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 1313172006700 acyl-activating enzyme (AAE) consensus motif; other site 1313172006701 AMP binding site [chemical binding]; other site 1313172006702 active site 1313172006703 CoA binding site [chemical binding]; other site 1313172006704 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1313172006705 UbiA prenyltransferase family; Region: UbiA; pfam01040 1313172006706 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1313172006707 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1313172006708 TAP-like protein; Region: Abhydrolase_4; pfam08386 1313172006709 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1313172006710 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 1313172006711 catalytic residues [active] 1313172006712 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1313172006713 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1313172006714 dimer interface [polypeptide binding]; other site 1313172006715 tetramer interface [polypeptide binding]; other site 1313172006716 PYR/PP interface [polypeptide binding]; other site 1313172006717 TPP binding site [chemical binding]; other site 1313172006718 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1313172006719 TPP-binding site; other site 1313172006720 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1313172006721 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1313172006722 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 1313172006723 S-adenosylmethionine binding site [chemical binding]; other site 1313172006724 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 1313172006725 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1313172006726 acyl-CoA synthetase; Validated; Region: PRK07798 1313172006727 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172006728 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 1313172006729 acyl-activating enzyme (AAE) consensus motif; other site 1313172006730 acyl-activating enzyme (AAE) consensus motif; other site 1313172006731 putative AMP binding site [chemical binding]; other site 1313172006732 putative active site [active] 1313172006733 putative CoA binding site [chemical binding]; other site 1313172006734 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1313172006735 putative active site [active] 1313172006736 putative catalytic site [active] 1313172006737 GTPase Era; Reviewed; Region: era; PRK00089 1313172006738 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1313172006739 G1 box; other site 1313172006740 GTP/Mg2+ binding site [chemical binding]; other site 1313172006741 Switch I region; other site 1313172006742 G2 box; other site 1313172006743 Switch II region; other site 1313172006744 G3 box; other site 1313172006745 G4 box; other site 1313172006746 G5 box; other site 1313172006747 KH domain; Region: KH_2; pfam07650 1313172006748 Sporulation and spore germination; Region: Germane; pfam10646 1313172006749 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 1313172006750 dimerization interface [polypeptide binding]; other site 1313172006751 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172006752 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 1313172006753 dimer interface [polypeptide binding]; other site 1313172006754 phosphorylation site [posttranslational modification] 1313172006755 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 1313172006756 ATP binding site [chemical binding]; other site 1313172006757 Mg2+ binding site [ion binding]; other site 1313172006758 G-X-G motif; other site 1313172006759 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172006760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172006761 active site 1313172006762 phosphorylation site [posttranslational modification] 1313172006763 intermolecular recognition site; other site 1313172006764 dimerization interface [polypeptide binding]; other site 1313172006765 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 1313172006766 DNA binding site [nucleotide binding] 1313172006767 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1313172006768 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1313172006769 acyl-activating enzyme (AAE) consensus motif; other site 1313172006770 putative AMP binding site [chemical binding]; other site 1313172006771 putative active site [active] 1313172006772 putative CoA binding site [chemical binding]; other site 1313172006773 enoyl-CoA hydratase; Provisional; Region: PRK07827 1313172006774 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 1313172006775 substrate binding site [chemical binding]; other site 1313172006776 oxyanion hole (OAH) forming residues; other site 1313172006777 trimer interface [polypeptide binding]; other site 1313172006778 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1313172006779 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1313172006780 active site 1313172006781 intersubunit interface [polypeptide binding]; other site 1313172006782 zinc binding site [ion binding]; other site 1313172006783 Na+ binding site [ion binding]; other site 1313172006784 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172006785 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 1313172006786 [2Fe-2S] cluster binding site [ion binding]; other site 1313172006787 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172006788 hydrophobic ligand binding site; other site 1313172006789 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1313172006790 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1313172006791 ATP binding site [chemical binding]; other site 1313172006792 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1313172006793 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 1313172006794 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1313172006795 catalytic residue [active] 1313172006796 putative FPP diphosphate binding site; other site 1313172006797 putative FPP binding hydrophobic cleft; other site 1313172006798 dimer interface [polypeptide binding]; other site 1313172006799 putative IPP diphosphate binding site; other site 1313172006800 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 1313172006801 dimer interface [polypeptide binding]; other site 1313172006802 putative IPP diphosphate binding site; other site 1313172006803 Recombination protein O N terminal; Region: RecO_N; pfam11967 1313172006804 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1313172006805 Recombination protein O C terminal; Region: RecO_C; pfam02565 1313172006806 von Willebrand factor; Region: vWF_A; pfam12450 1313172006807 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1313172006808 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 1313172006809 metal ion-dependent adhesion site (MIDAS); other site 1313172006810 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 1313172006811 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1313172006812 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1313172006813 dimer interface [polypeptide binding]; other site 1313172006814 motif 1; other site 1313172006815 active site 1313172006816 motif 2; other site 1313172006817 motif 3; other site 1313172006818 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 1313172006819 anticodon binding site; other site 1313172006820 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 1313172006821 active site 1313172006822 ribulose/triose binding site [chemical binding]; other site 1313172006823 phosphate binding site [ion binding]; other site 1313172006824 substrate (anthranilate) binding pocket [chemical binding]; other site 1313172006825 product (indole) binding pocket [chemical binding]; other site 1313172006826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172006827 short chain dehydrogenase; Provisional; Region: PRK07832 1313172006828 NAD(P) binding site [chemical binding]; other site 1313172006829 active site 1313172006830 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1313172006831 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1313172006832 active site 1313172006833 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1313172006834 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 1313172006835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172006836 catalytic residue [active] 1313172006837 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 1313172006838 substrate binding site [chemical binding]; other site 1313172006839 active site 1313172006840 catalytic residues [active] 1313172006841 heterodimer interface [polypeptide binding]; other site 1313172006842 choline dehydrogenase; Validated; Region: PRK02106 1313172006843 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1313172006844 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1313172006845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172006846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172006847 metal binding site [ion binding]; metal-binding site 1313172006848 active site 1313172006849 I-site; other site 1313172006850 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1313172006851 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 1313172006852 Catalytic site [active] 1313172006853 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 1313172006854 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1313172006855 substrate binding site [chemical binding]; other site 1313172006856 ligand binding site [chemical binding]; other site 1313172006857 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1313172006858 substrate binding site [chemical binding]; other site 1313172006859 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1313172006860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172006861 DNA-binding site [nucleotide binding]; DNA binding site 1313172006862 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1313172006863 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172006864 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1313172006865 phosphate binding site [ion binding]; other site 1313172006866 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1313172006867 FMN binding site [chemical binding]; other site 1313172006868 dimer interface [polypeptide binding]; other site 1313172006869 enoyl-CoA hydratase; Provisional; Region: PRK07509 1313172006870 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 1313172006871 substrate binding site [chemical binding]; other site 1313172006872 oxyanion hole (OAH) forming residues; other site 1313172006873 trimer interface [polypeptide binding]; other site 1313172006874 Yqey-like protein; Region: YqeY; cl17540 1313172006875 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1313172006876 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 1313172006877 active site 1313172006878 dimer interface [polypeptide binding]; other site 1313172006879 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1313172006880 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 1313172006881 active site 1313172006882 FMN binding site [chemical binding]; other site 1313172006883 substrate binding site [chemical binding]; other site 1313172006884 3Fe-4S cluster binding site [ion binding]; other site 1313172006885 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 1313172006886 domain interface; other site 1313172006887 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1313172006888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172006889 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1313172006890 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1313172006891 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1313172006892 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1313172006893 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1313172006894 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1313172006895 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1313172006896 NAD(P) binding site [chemical binding]; other site 1313172006897 catalytic residues [active] 1313172006898 Peptidase family M1; Region: Peptidase_M1; pfam01433 1313172006899 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 1313172006900 Zn binding site [ion binding]; other site 1313172006901 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172006902 CAAX protease self-immunity; Region: Abi; pfam02517 1313172006903 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1313172006904 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1313172006905 active site 1313172006906 ATP-binding site [chemical binding]; other site 1313172006907 pantoate-binding site; other site 1313172006908 HXXH motif; other site 1313172006909 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1313172006910 putative active site pocket [active] 1313172006911 cleavage site 1313172006912 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1313172006913 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172006914 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1313172006915 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1313172006916 substrate binding pocket [chemical binding]; other site 1313172006917 catalytic triad [active] 1313172006918 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1313172006919 trimer interface [polypeptide binding]; other site 1313172006920 active site 1313172006921 substrate binding site [chemical binding]; other site 1313172006922 CoA binding site [chemical binding]; other site 1313172006923 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172006924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172006925 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1313172006926 Walker A/P-loop; other site 1313172006927 ATP binding site [chemical binding]; other site 1313172006928 Q-loop/lid; other site 1313172006929 ABC transporter signature motif; other site 1313172006930 Walker B; other site 1313172006931 D-loop; other site 1313172006932 H-loop/switch region; other site 1313172006933 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1313172006934 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172006935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172006936 Walker A/P-loop; other site 1313172006937 ATP binding site [chemical binding]; other site 1313172006938 Q-loop/lid; other site 1313172006939 ABC transporter signature motif; other site 1313172006940 Walker B; other site 1313172006941 D-loop; other site 1313172006942 H-loop/switch region; other site 1313172006943 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172006944 classical (c) SDRs; Region: SDR_c; cd05233 1313172006945 NAD(P) binding site [chemical binding]; other site 1313172006946 active site 1313172006947 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1313172006948 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1313172006949 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 1313172006950 catalytic core [active] 1313172006951 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1313172006952 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 1313172006953 S-adenosylmethionine binding site [chemical binding]; other site 1313172006954 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172006955 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1313172006956 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172006957 classical (c) SDRs; Region: SDR_c; cd05233 1313172006958 NAD(P) binding site [chemical binding]; other site 1313172006959 active site 1313172006960 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1313172006961 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1313172006962 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172006963 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 1313172006964 TM-ABC transporter signature motif; other site 1313172006965 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172006966 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 1313172006967 TM-ABC transporter signature motif; other site 1313172006968 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1313172006969 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1313172006970 Walker A/P-loop; other site 1313172006971 ATP binding site [chemical binding]; other site 1313172006972 Q-loop/lid; other site 1313172006973 ABC transporter signature motif; other site 1313172006974 Walker B; other site 1313172006975 D-loop; other site 1313172006976 H-loop/switch region; other site 1313172006977 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1313172006978 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1313172006979 Walker A/P-loop; other site 1313172006980 ATP binding site [chemical binding]; other site 1313172006981 Q-loop/lid; other site 1313172006982 ABC transporter signature motif; other site 1313172006983 Walker B; other site 1313172006984 D-loop; other site 1313172006985 H-loop/switch region; other site 1313172006986 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1313172006987 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1313172006988 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1313172006989 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 1313172006990 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1313172006991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172006992 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1313172006993 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1313172006994 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1313172006995 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1313172006996 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1313172006997 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 1313172006998 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 1313172006999 active site 1313172007000 motif I; other site 1313172007001 motif II; other site 1313172007002 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1313172007003 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1313172007004 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 1313172007005 RNA binding surface [nucleotide binding]; other site 1313172007006 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1313172007007 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1313172007008 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1313172007009 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1313172007010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172007011 Walker A/P-loop; other site 1313172007012 ATP binding site [chemical binding]; other site 1313172007013 Q-loop/lid; other site 1313172007014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172007015 ABC transporter signature motif; other site 1313172007016 Walker B; other site 1313172007017 D-loop; other site 1313172007018 H-loop/switch region; other site 1313172007019 CTP synthetase; Validated; Region: pyrG; PRK05380 1313172007020 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 1313172007021 Catalytic site [active] 1313172007022 active site 1313172007023 UTP binding site [chemical binding]; other site 1313172007024 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1313172007025 active site 1313172007026 putative oxyanion hole; other site 1313172007027 catalytic triad [active] 1313172007028 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1313172007029 dimer interface [polypeptide binding]; other site 1313172007030 ADP-ribose binding site [chemical binding]; other site 1313172007031 active site 1313172007032 nudix motif; other site 1313172007033 metal binding site [ion binding]; metal-binding site 1313172007034 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 1313172007035 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1313172007036 active site 1313172007037 DNA binding site [nucleotide binding] 1313172007038 Int/Topo IB signature motif; other site 1313172007039 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172007040 Zn2+ binding site [ion binding]; other site 1313172007041 Mg2+ binding site [ion binding]; other site 1313172007042 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1313172007043 putative efflux protein, MATE family; Region: matE; TIGR00797 1313172007044 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1313172007045 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1313172007046 active site 1313172007047 HIGH motif; other site 1313172007048 dimer interface [polypeptide binding]; other site 1313172007049 KMSKS motif; other site 1313172007050 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1313172007051 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1313172007052 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1313172007053 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 1313172007054 RNA binding surface [nucleotide binding]; other site 1313172007055 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1313172007056 active site 1313172007057 prephenate dehydrogenase; Validated; Region: PRK06545 1313172007058 prephenate dehydrogenase; Validated; Region: PRK08507 1313172007059 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1313172007060 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 1313172007061 hinge; other site 1313172007062 active site 1313172007063 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1313172007064 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1313172007065 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1313172007066 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1313172007067 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1313172007068 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172007069 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1313172007070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172007071 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1313172007072 NAD(P) binding site [chemical binding]; other site 1313172007073 active site 1313172007074 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1313172007075 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172007076 active site 1313172007077 catalytic triad [active] 1313172007078 oxyanion hole [active] 1313172007079 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 1313172007080 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172007081 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 1313172007082 active site 1313172007083 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1313172007084 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1313172007085 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1313172007086 Ligand binding site; other site 1313172007087 Putative Catalytic site; other site 1313172007088 DXD motif; other site 1313172007089 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 1313172007090 Ligand binding site; other site 1313172007091 Ligand binding site; other site 1313172007092 Ligand binding site; other site 1313172007093 Putative Catalytic site; other site 1313172007094 DXD motif; other site 1313172007095 Predicted membrane protein [Function unknown]; Region: COG2246 1313172007096 GtrA-like protein; Region: GtrA; pfam04138 1313172007097 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1313172007098 Ligand binding site; other site 1313172007099 Putative Catalytic site; other site 1313172007100 DXD motif; other site 1313172007101 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1313172007102 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1313172007103 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 1313172007104 S-adenosylmethionine binding site [chemical binding]; other site 1313172007105 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1313172007106 hypothetical protein; Validated; Region: PRK00029 1313172007107 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1313172007108 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 1313172007109 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1313172007110 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172007111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172007112 NAD(P) binding site [chemical binding]; other site 1313172007113 active site 1313172007114 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172007115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172007116 NAD(P) binding site [chemical binding]; other site 1313172007117 active site 1313172007118 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1313172007119 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1313172007120 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1313172007121 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1313172007122 Ligand binding site; other site 1313172007123 Putative Catalytic site; other site 1313172007124 DXD motif; other site 1313172007125 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1313172007126 minor groove reading motif; other site 1313172007127 helix-hairpin-helix signature motif; other site 1313172007128 active site 1313172007129 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1313172007130 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1313172007131 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1313172007132 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1313172007133 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1313172007134 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1313172007135 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 1313172007136 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1313172007137 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172007138 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1313172007139 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172007140 active site 1313172007141 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 1313172007142 Peptidase family M50; Region: Peptidase_M50; pfam02163 1313172007143 active site 1313172007144 putative substrate binding region [chemical binding]; other site 1313172007145 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 1313172007146 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1313172007147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172007148 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1313172007149 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1313172007150 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 1313172007151 dimer interface [polypeptide binding]; other site 1313172007152 conserved gate region; other site 1313172007153 putative PBP binding loops; other site 1313172007154 ABC-ATPase subunit interface; other site 1313172007155 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1313172007156 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1313172007157 Walker A/P-loop; other site 1313172007158 ATP binding site [chemical binding]; other site 1313172007159 Q-loop/lid; other site 1313172007160 ABC transporter signature motif; other site 1313172007161 Walker B; other site 1313172007162 D-loop; other site 1313172007163 H-loop/switch region; other site 1313172007164 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1313172007165 putative deaminase; Validated; Region: PRK06846 1313172007166 active site 1313172007167 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1313172007168 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172007169 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1313172007170 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1313172007171 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 1313172007172 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1313172007173 putative active site [active] 1313172007174 putative metal binding site [ion binding]; other site 1313172007175 catalytic site [active] 1313172007176 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1313172007177 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172007178 acyl-activating enzyme (AAE) consensus motif; other site 1313172007179 putative AMP binding site [chemical binding]; other site 1313172007180 putative active site [active] 1313172007181 putative CoA binding site [chemical binding]; other site 1313172007182 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1313172007183 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1313172007184 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 1313172007185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172007186 active site 1313172007187 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1313172007188 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1313172007189 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1313172007190 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 1313172007191 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1313172007192 GTP-binding protein Der; Reviewed; Region: PRK00093 1313172007193 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1313172007194 G1 box; other site 1313172007195 GTP/Mg2+ binding site [chemical binding]; other site 1313172007196 Switch I region; other site 1313172007197 G2 box; other site 1313172007198 Switch II region; other site 1313172007199 G3 box; other site 1313172007200 G4 box; other site 1313172007201 G5 box; other site 1313172007202 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1313172007203 G1 box; other site 1313172007204 GTP/Mg2+ binding site [chemical binding]; other site 1313172007205 Switch I region; other site 1313172007206 G2 box; other site 1313172007207 G3 box; other site 1313172007208 Switch II region; other site 1313172007209 G4 box; other site 1313172007210 G5 box; other site 1313172007211 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1313172007212 META domain; Region: META; pfam03724 1313172007213 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1313172007214 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1313172007215 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1313172007216 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172007217 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1313172007218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172007219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172007220 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1313172007221 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1313172007222 NAD(P) binding site [chemical binding]; other site 1313172007223 catalytic residues [active] 1313172007224 agmatinase; Region: agmatinase; TIGR01230 1313172007225 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1313172007226 putative active site [active] 1313172007227 Mn binding site [ion binding]; other site 1313172007228 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1313172007229 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1313172007230 dimer interface [polypeptide binding]; other site 1313172007231 active site 1313172007232 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1313172007233 catalytic residues [active] 1313172007234 substrate binding site [chemical binding]; other site 1313172007235 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1313172007236 arginine decarboxylase; Provisional; Region: PRK05354 1313172007237 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1313172007238 dimer interface [polypeptide binding]; other site 1313172007239 active site 1313172007240 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1313172007241 catalytic residues [active] 1313172007242 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1313172007243 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 1313172007244 putative DNA binding site [nucleotide binding]; other site 1313172007245 putative Zn2+ binding site [ion binding]; other site 1313172007246 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1313172007247 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1313172007248 nucleotide binding site/active site [active] 1313172007249 HIT family signature motif; other site 1313172007250 catalytic residue [active] 1313172007251 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1313172007252 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 1313172007253 lipoyl attachment site [posttranslational modification]; other site 1313172007254 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1313172007255 Double zinc ribbon; Region: DZR; pfam12773 1313172007256 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1313172007257 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1313172007258 phosphopeptide binding site; other site 1313172007259 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1313172007260 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172007261 DNA binding residues [nucleotide binding] 1313172007262 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1313172007263 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1313172007264 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1313172007265 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172007266 DNA binding residues [nucleotide binding] 1313172007267 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1313172007268 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1313172007269 glycine dehydrogenase; Provisional; Region: PRK05367 1313172007270 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 1313172007271 tetramer interface [polypeptide binding]; other site 1313172007272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172007273 catalytic residue [active] 1313172007274 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 1313172007275 tetramer interface [polypeptide binding]; other site 1313172007276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172007277 catalytic residue [active] 1313172007278 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172007279 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1313172007280 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1313172007281 beta-D-glucuronidase; Provisional; Region: PRK10150 1313172007282 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1313172007283 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172007284 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1313172007285 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172007286 putative AMP binding site [chemical binding]; other site 1313172007287 putative active site [active] 1313172007288 acyl-activating enzyme (AAE) consensus motif; other site 1313172007289 acyl-activating enzyme (AAE) consensus motif; other site 1313172007290 putative CoA binding site [chemical binding]; other site 1313172007291 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1313172007292 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172007293 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1313172007294 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172007295 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1313172007296 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172007297 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1313172007298 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172007299 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172007300 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172007301 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1313172007302 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 1313172007303 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172007304 catalytic residue [active] 1313172007305 Transcription factor WhiB; Region: Whib; pfam02467 1313172007306 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1313172007307 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1313172007308 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 1313172007309 substrate binding site [chemical binding]; other site 1313172007310 dimer interface [polypeptide binding]; other site 1313172007311 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1313172007312 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 1313172007313 trimer interface [polypeptide binding]; other site 1313172007314 putative metal binding site [ion binding]; other site 1313172007315 enoyl-CoA hydratase; Provisional; Region: PRK08252 1313172007316 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 1313172007317 substrate binding site [chemical binding]; other site 1313172007318 oxyanion hole (OAH) forming residues; other site 1313172007319 trimer interface [polypeptide binding]; other site 1313172007320 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1313172007321 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1313172007322 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1313172007323 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 1313172007324 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 1313172007325 ATP binding site [chemical binding]; other site 1313172007326 putative Mg++ binding site [ion binding]; other site 1313172007327 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 1313172007328 nucleotide binding region [chemical binding]; other site 1313172007329 ATP-binding site [chemical binding]; other site 1313172007330 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1313172007331 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1313172007332 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1313172007333 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1313172007334 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1313172007335 active site 1313172007336 catalytic site [active] 1313172007337 metal binding site [ion binding]; metal-binding site 1313172007338 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1313172007339 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 1313172007340 Catalytic site [active] 1313172007341 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 1313172007342 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 1313172007343 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 1313172007344 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1313172007345 active site 1313172007346 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1313172007347 active site 1313172007348 Pup-like protein; Region: Pup; cl05289 1313172007349 Pup-ligase protein; Region: Pup_ligase; pfam03136 1313172007350 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1313172007351 proteasome ATPase; Region: pup_AAA; TIGR03689 1313172007352 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 1313172007353 Walker A motif; other site 1313172007354 ATP binding site [chemical binding]; other site 1313172007355 Walker B motif; other site 1313172007356 arginine finger; other site 1313172007357 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1313172007358 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172007359 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172007360 WHG domain; Region: WHG; pfam13305 1313172007361 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 1313172007362 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 1313172007363 S-adenosylmethionine binding site [chemical binding]; other site 1313172007364 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1313172007365 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1313172007366 Ligand Binding Site [chemical binding]; other site 1313172007367 TIGR00269 family protein; Region: TIGR00269 1313172007368 ThiS family; Region: ThiS; pfam02597 1313172007369 charged pocket; other site 1313172007370 hydrophobic patch; other site 1313172007371 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1313172007372 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1313172007373 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1313172007374 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1313172007375 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1313172007376 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1313172007377 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1313172007378 CoA binding domain; Region: CoA_binding_2; pfam13380 1313172007379 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1313172007380 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172007381 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172007382 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 1313172007383 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 1313172007384 Catalytic site [active] 1313172007385 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172007386 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172007387 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1313172007388 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 1313172007389 TPP-binding site [chemical binding]; other site 1313172007390 dimer interface [polypeptide binding]; other site 1313172007391 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 1313172007392 PYR/PP interface [polypeptide binding]; other site 1313172007393 dimer interface [polypeptide binding]; other site 1313172007394 TPP binding site [chemical binding]; other site 1313172007395 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1313172007396 putative active site [active] 1313172007397 transaldolase; Provisional; Region: PRK03903 1313172007398 catalytic residue [active] 1313172007399 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 1313172007400 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1313172007401 Moco binding site; other site 1313172007402 metal coordination site [ion binding]; other site 1313172007403 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1313172007404 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1313172007405 Cysteine-rich domain; Region: CCG; pfam02754 1313172007406 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1313172007407 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 1313172007408 putative DNA binding site [nucleotide binding]; other site 1313172007409 catalytic residue [active] 1313172007410 putative H2TH interface [polypeptide binding]; other site 1313172007411 putative catalytic residues [active] 1313172007412 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1313172007413 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1313172007414 SET domain; Region: SET; pfam00856 1313172007415 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172007416 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1313172007417 substrate binding site [chemical binding]; other site 1313172007418 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1313172007419 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172007420 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172007421 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1313172007422 recombination factor protein RarA; Reviewed; Region: PRK13342 1313172007423 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 1313172007424 Walker A motif; other site 1313172007425 ATP binding site [chemical binding]; other site 1313172007426 Walker B motif; other site 1313172007427 arginine finger; other site 1313172007428 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1313172007429 RNA pyrophosphohydrolase; Reviewed; Region: PRK00714 1313172007430 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1313172007431 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172007432 Walker A/P-loop; other site 1313172007433 ATP binding site [chemical binding]; other site 1313172007434 Q-loop/lid; other site 1313172007435 ABC transporter signature motif; other site 1313172007436 Walker B; other site 1313172007437 D-loop; other site 1313172007438 H-loop/switch region; other site 1313172007439 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1313172007440 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172007441 Walker A/P-loop; other site 1313172007442 ATP binding site [chemical binding]; other site 1313172007443 Q-loop/lid; other site 1313172007444 ABC transporter signature motif; other site 1313172007445 Walker B; other site 1313172007446 D-loop; other site 1313172007447 H-loop/switch region; other site 1313172007448 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1313172007449 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1313172007450 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 1313172007451 dimer interface [polypeptide binding]; other site 1313172007452 conserved gate region; other site 1313172007453 putative PBP binding loops; other site 1313172007454 ABC-ATPase subunit interface; other site 1313172007455 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1313172007456 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 1313172007457 dimer interface [polypeptide binding]; other site 1313172007458 conserved gate region; other site 1313172007459 putative PBP binding loops; other site 1313172007460 ABC-ATPase subunit interface; other site 1313172007461 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1313172007462 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 1313172007463 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172007464 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172007465 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172007466 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 1313172007467 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1313172007468 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 1313172007469 acyl-activating enzyme (AAE) consensus motif; other site 1313172007470 active site 1313172007471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172007472 TIGR01777 family protein; Region: yfcH 1313172007473 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 1313172007474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172007475 DNA-binding site [nucleotide binding]; DNA binding site 1313172007476 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 1313172007477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172007478 homodimer interface [polypeptide binding]; other site 1313172007479 catalytic residue [active] 1313172007480 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172007481 Cytochrome P450; Region: p450; cl12078 1313172007482 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172007483 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172007484 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1313172007485 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1313172007486 HIGH motif; other site 1313172007487 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1313172007488 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172007489 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172007490 active site 1313172007491 KMSKS motif; other site 1313172007492 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1313172007493 tRNA binding surface [nucleotide binding]; other site 1313172007494 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1313172007495 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1313172007496 YHYH protein; Region: YHYH; pfam14240 1313172007497 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172007498 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 1313172007499 substrate binding site [chemical binding]; other site 1313172007500 oxyanion hole (OAH) forming residues; other site 1313172007501 trimer interface [polypeptide binding]; other site 1313172007502 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172007503 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172007504 active site 1313172007505 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172007506 active site 1313172007507 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172007508 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1313172007509 FAD binding site [chemical binding]; other site 1313172007510 substrate binding site [chemical binding]; other site 1313172007511 catalytic base [active] 1313172007512 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1313172007513 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172007514 Walker A/P-loop; other site 1313172007515 ATP binding site [chemical binding]; other site 1313172007516 Q-loop/lid; other site 1313172007517 ABC transporter signature motif; other site 1313172007518 Walker B; other site 1313172007519 D-loop; other site 1313172007520 H-loop/switch region; other site 1313172007521 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1313172007522 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172007523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172007524 Walker A/P-loop; other site 1313172007525 ATP binding site [chemical binding]; other site 1313172007526 Q-loop/lid; other site 1313172007527 ABC transporter signature motif; other site 1313172007528 Walker B; other site 1313172007529 D-loop; other site 1313172007530 H-loop/switch region; other site 1313172007531 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1313172007532 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1313172007533 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 1313172007534 dimer interface [polypeptide binding]; other site 1313172007535 conserved gate region; other site 1313172007536 putative PBP binding loops; other site 1313172007537 ABC-ATPase subunit interface; other site 1313172007538 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1313172007539 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 1313172007540 dimer interface [polypeptide binding]; other site 1313172007541 conserved gate region; other site 1313172007542 putative PBP binding loops; other site 1313172007543 ABC-ATPase subunit interface; other site 1313172007544 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 1313172007545 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1313172007546 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1313172007547 conserved cys residue [active] 1313172007548 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172007549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172007550 acyl-activating enzyme (AAE) consensus motif; other site 1313172007551 AMP binding site [chemical binding]; other site 1313172007552 active site 1313172007553 CoA binding site [chemical binding]; other site 1313172007554 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172007555 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172007556 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172007557 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1313172007558 Oligomerisation domain; Region: Oligomerisation; pfam02410 1313172007559 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1313172007560 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1313172007561 active site 1313172007562 (T/H)XGH motif; other site 1313172007563 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1313172007564 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 1313172007565 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172007566 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; cl17257 1313172007567 DNA binding residues [nucleotide binding] 1313172007568 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1313172007569 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172007570 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172007571 GAF domain; Region: GAF; pfam01590 1313172007572 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1313172007573 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1313172007574 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1313172007575 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1313172007576 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1313172007577 catalytic residue [active] 1313172007578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172007579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172007580 metal binding site [ion binding]; metal-binding site 1313172007581 active site 1313172007582 I-site; other site 1313172007583 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1313172007584 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172007585 Cytochrome P450; Region: p450; cl12078 1313172007586 thymidine kinase; Provisional; Region: PRK04296 1313172007587 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK03180 1313172007588 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 1313172007589 active site 1313172007590 DNA binding site [nucleotide binding] 1313172007591 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1313172007592 DNA binding site [nucleotide binding] 1313172007593 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 1313172007594 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1313172007595 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1313172007596 dimer interface [polypeptide binding]; other site 1313172007597 PYR/PP interface [polypeptide binding]; other site 1313172007598 TPP binding site [chemical binding]; other site 1313172007599 substrate binding site [chemical binding]; other site 1313172007600 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 1313172007601 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1313172007602 TPP-binding site [chemical binding]; other site 1313172007603 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 1313172007604 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1313172007605 Family description; Region: UvrD_C_2; pfam13538 1313172007606 HRDC domain; Region: HRDC; pfam00570 1313172007607 RibD C-terminal domain; Region: RibD_C; cl17279 1313172007608 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1313172007609 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1313172007610 ATP cone domain; Region: ATP-cone; pfam03477 1313172007611 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172007612 LexA repressor; Validated; Region: PRK00215 1313172007613 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 1313172007614 putative DNA binding site [nucleotide binding]; other site 1313172007615 putative Zn2+ binding site [ion binding]; other site 1313172007616 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 1313172007617 Catalytic site [active] 1313172007618 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 1313172007619 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 1313172007620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172007621 homodimer interface [polypeptide binding]; other site 1313172007622 catalytic residue [active] 1313172007623 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1313172007624 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1313172007625 HflX GTPase family; Region: HflX; cd01878 1313172007626 G1 box; other site 1313172007627 GTP/Mg2+ binding site [chemical binding]; other site 1313172007628 Switch I region; other site 1313172007629 G2 box; other site 1313172007630 G3 box; other site 1313172007631 Switch II region; other site 1313172007632 G4 box; other site 1313172007633 G5 box; other site 1313172007634 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1313172007635 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1313172007636 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1313172007637 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1313172007638 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1313172007639 chorismate mutase; Provisional; Region: PRK09239 1313172007640 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1313172007641 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1313172007642 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 1313172007643 FeS/SAM binding site; other site 1313172007644 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 1313172007645 recombinase A; Provisional; Region: recA; PRK09354 1313172007646 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 1313172007647 hexamer interface [polypeptide binding]; other site 1313172007648 Walker A motif; other site 1313172007649 ATP binding site [chemical binding]; other site 1313172007650 Walker B motif; other site 1313172007651 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1313172007652 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 1313172007653 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 1313172007654 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1313172007655 active site 1313172007656 catalytic tetrad [active] 1313172007657 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1313172007658 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 1313172007659 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172007660 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1313172007661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172007662 Walker A/P-loop; other site 1313172007663 ATP binding site [chemical binding]; other site 1313172007664 Q-loop/lid; other site 1313172007665 ABC transporter signature motif; other site 1313172007666 Walker B; other site 1313172007667 D-loop; other site 1313172007668 H-loop/switch region; other site 1313172007669 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1313172007670 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1313172007671 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1313172007672 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1313172007673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172007674 Walker A/P-loop; other site 1313172007675 ATP binding site [chemical binding]; other site 1313172007676 Q-loop/lid; other site 1313172007677 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172007678 ABC transporter; Region: ABC_tran_2; pfam12848 1313172007679 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172007680 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1313172007681 dinuclear metal binding motif [ion binding]; other site 1313172007682 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1313172007683 metal binding site [ion binding]; metal-binding site 1313172007684 nucleotidyl binding site; other site 1313172007685 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172007686 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1313172007687 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172007688 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1313172007689 active site 1313172007690 enoyl-CoA hydratase; Provisional; Region: PRK06210 1313172007691 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 1313172007692 substrate binding site [chemical binding]; other site 1313172007693 oxyanion hole (OAH) forming residues; other site 1313172007694 trimer interface [polypeptide binding]; other site 1313172007695 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172007696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172007697 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172007698 active site 1313172007699 catalytic triad [active] 1313172007700 oxyanion hole [active] 1313172007701 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1313172007702 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1313172007703 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172007704 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172007705 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1313172007706 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1313172007707 dimer interface [polypeptide binding]; other site 1313172007708 substrate binding site [chemical binding]; other site 1313172007709 metal binding site [ion binding]; metal-binding site 1313172007710 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1313172007711 ABC1 family; Region: ABC1; cl17513 1313172007712 hypothetical protein; Provisional; Region: PRK03298 1313172007713 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 1313172007714 S-(hydroxymethyl)mycothiol dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 1313172007715 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1313172007716 NAD binding site [chemical binding]; other site 1313172007717 catalytic Zn binding site [ion binding]; other site 1313172007718 substrate binding site [chemical binding]; other site 1313172007719 structural Zn binding site [ion binding]; other site 1313172007720 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172007721 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1313172007722 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1313172007723 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1313172007724 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1313172007725 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1313172007726 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1313172007727 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1313172007728 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 1313172007729 active site 1313172007730 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 1313172007731 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; cd05709 1313172007732 putative substrate binding region [chemical binding]; other site 1313172007733 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1313172007734 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1313172007735 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1313172007736 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1313172007737 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1313172007738 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1313172007739 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1313172007740 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1313172007741 hinge region; other site 1313172007742 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 1313172007743 putative nucleotide binding site [chemical binding]; other site 1313172007744 uridine monophosphate binding site [chemical binding]; other site 1313172007745 homohexameric interface [polypeptide binding]; other site 1313172007746 elongation factor Ts; Provisional; Region: tsf; PRK09377 1313172007747 UBA/TS-N domain; Region: UBA; pfam00627 1313172007748 Elongation factor TS; Region: EF_TS; pfam00889 1313172007749 Elongation factor TS; Region: EF_TS; pfam00889 1313172007750 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 1313172007751 rRNA interaction site [nucleotide binding]; other site 1313172007752 S8 interaction site; other site 1313172007753 putative laminin-1 binding site; other site 1313172007754 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172007755 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172007756 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1313172007757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172007758 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1313172007759 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 1313172007760 DNA binding residues [nucleotide binding] 1313172007761 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1313172007762 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 1313172007763 active site 1313172007764 DNA binding site [nucleotide binding] 1313172007765 Int/Topo IB signature motif; other site 1313172007766 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1313172007767 DNA protecting protein DprA; Region: dprA; TIGR00732 1313172007768 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1313172007769 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1313172007770 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1313172007771 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1313172007772 Clp protease; Region: CLP_protease; pfam00574 1313172007773 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1313172007774 oligomer interface [polypeptide binding]; other site 1313172007775 active site residues [active] 1313172007776 Predicted membrane protein [Function unknown]; Region: COG1470 1313172007777 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1313172007778 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1313172007779 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 1313172007780 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172007781 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 1313172007782 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172007783 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172007784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172007785 NAD(P) binding site [chemical binding]; other site 1313172007786 active site 1313172007787 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 1313172007788 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 1313172007789 Domain of unknown function DUF87; Region: DUF87; pfam01935 1313172007790 AAA-like domain; Region: AAA_10; pfam12846 1313172007791 HAMP domain; Region: HAMP; pfam00672 1313172007792 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172007793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172007794 metal binding site [ion binding]; metal-binding site 1313172007795 active site 1313172007796 I-site; other site 1313172007797 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172007798 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1313172007799 putative catalytic site [active] 1313172007800 putative metal binding site [ion binding]; other site 1313172007801 putative phosphate binding site [ion binding]; other site 1313172007802 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 1313172007803 active site 1313172007804 dimerization interface [polypeptide binding]; other site 1313172007805 ribonuclease PH; Reviewed; Region: rph; PRK00173 1313172007806 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1313172007807 hexamer interface [polypeptide binding]; other site 1313172007808 active site 1313172007809 glutamate racemase; Provisional; Region: PRK00865 1313172007810 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1313172007811 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 1313172007812 dimer interface [polypeptide binding]; other site 1313172007813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172007814 catalytic residue [active] 1313172007815 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1313172007816 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 1313172007817 MPN+ (JAMM) motif; other site 1313172007818 Zinc-binding site [ion binding]; other site 1313172007819 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 1313172007820 SmpB-tmRNA interface; other site 1313172007821 Septum formation; Region: Septum_form; pfam13845 1313172007822 Septum formation; Region: Septum_form; pfam13845 1313172007823 Septum formation; Region: Septum_form; pfam13845 1313172007824 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1313172007825 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1313172007826 Fic family protein [Function unknown]; Region: COG3177 1313172007827 Fic/DOC family; Region: Fic; pfam02661 1313172007828 Pirin-related protein [General function prediction only]; Region: COG1741 1313172007829 Pirin; Region: Pirin; pfam02678 1313172007830 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1313172007831 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172007832 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172007833 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1313172007834 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172007835 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172007836 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1313172007837 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1313172007838 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1313172007839 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 1313172007840 Ligand Binding Site [chemical binding]; other site 1313172007841 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 1313172007842 Ligand Binding Site [chemical binding]; other site 1313172007843 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1313172007844 ACT domain; Region: ACT_6; pfam13740 1313172007845 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1313172007846 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 1313172007847 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172007848 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172007849 Walker A/P-loop; other site 1313172007850 ATP binding site [chemical binding]; other site 1313172007851 Q-loop/lid; other site 1313172007852 ABC transporter signature motif; other site 1313172007853 Walker B; other site 1313172007854 D-loop; other site 1313172007855 H-loop/switch region; other site 1313172007856 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172007857 FtsX-like permease family; Region: FtsX; pfam02687 1313172007858 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172007859 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1313172007860 FtsX-like permease family; Region: FtsX; pfam02687 1313172007861 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1313172007862 Active site serine [active] 1313172007863 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172007864 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1313172007865 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1313172007866 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1313172007867 N- and C-terminal domain interface [polypeptide binding]; other site 1313172007868 active site 1313172007869 MgATP binding site [chemical binding]; other site 1313172007870 catalytic site [active] 1313172007871 metal binding site [ion binding]; metal-binding site 1313172007872 xylulose binding site [chemical binding]; other site 1313172007873 putative homodimer interface [polypeptide binding]; other site 1313172007874 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172007875 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 1313172007876 TM-ABC transporter signature motif; other site 1313172007877 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1313172007878 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1313172007879 Walker A/P-loop; other site 1313172007880 ATP binding site [chemical binding]; other site 1313172007881 Q-loop/lid; other site 1313172007882 ABC transporter signature motif; other site 1313172007883 Walker B; other site 1313172007884 D-loop; other site 1313172007885 H-loop/switch region; other site 1313172007886 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1313172007887 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1313172007888 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1313172007889 nucleotide binding site [chemical binding]; other site 1313172007890 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1313172007891 Cupin domain; Region: Cupin_2; cl17218 1313172007892 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1313172007893 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1313172007894 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1313172007895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172007896 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 1313172007897 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172007898 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1313172007899 SnoaL-like domain; Region: SnoaL_2; pfam12680 1313172007900 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172007901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172007902 NAD(P) binding site [chemical binding]; other site 1313172007903 active site 1313172007904 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 1313172007905 homotrimer interaction site [polypeptide binding]; other site 1313172007906 putative active site [active] 1313172007907 hypothetical protein; Provisional; Region: PRK06194 1313172007908 classical (c) SDRs; Region: SDR_c; cd05233 1313172007909 NAD(P) binding site [chemical binding]; other site 1313172007910 active site 1313172007911 Cupin domain; Region: Cupin_2; cl17218 1313172007912 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172007913 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 1313172007914 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 1313172007915 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1313172007916 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1313172007917 DUF35 OB-fold domain; Region: DUF35; pfam01796 1313172007918 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1313172007919 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1313172007920 active site 1313172007921 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1313172007922 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172007923 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172007924 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172007925 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1313172007926 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 1313172007927 active site 1313172007928 Zn binding site [ion binding]; other site 1313172007929 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1313172007930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172007931 Coenzyme A binding pocket [chemical binding]; other site 1313172007932 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1313172007933 CoA binding domain; Region: CoA_binding_2; pfam13380 1313172007934 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1313172007935 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1313172007936 Nuclease-related domain; Region: NERD; pfam08378 1313172007937 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1313172007938 hypothetical protein; Provisional; Region: PRK07906 1313172007939 putative metal binding site [ion binding]; other site 1313172007940 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 1313172007941 F420-0:gamma-glutamyl ligase; Region: F420_cofE; TIGR01916 1313172007942 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1313172007943 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 1313172007944 substrate binding site [chemical binding]; other site 1313172007945 oxyanion hole (OAH) forming residues; other site 1313172007946 trimer interface [polypeptide binding]; other site 1313172007947 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1313172007948 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1313172007949 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1313172007950 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1313172007951 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1313172007952 putative active site [active] 1313172007953 putative substrate binding site [chemical binding]; other site 1313172007954 putative cosubstrate binding site; other site 1313172007955 catalytic site [active] 1313172007956 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1313172007957 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172007958 Walker A/P-loop; other site 1313172007959 ATP binding site [chemical binding]; other site 1313172007960 Q-loop/lid; other site 1313172007961 ABC transporter signature motif; other site 1313172007962 Walker B; other site 1313172007963 D-loop; other site 1313172007964 H-loop/switch region; other site 1313172007965 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1313172007966 apolar tunnel; other site 1313172007967 heme binding site [chemical binding]; other site 1313172007968 dimerization interface [polypeptide binding]; other site 1313172007969 PRC-barrel domain; Region: PRC; pfam05239 1313172007970 enoyl-CoA hydratase; Provisional; Region: PRK08260 1313172007971 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 1313172007972 substrate binding site [chemical binding]; other site 1313172007973 oxyanion hole (OAH) forming residues; other site 1313172007974 trimer interface [polypeptide binding]; other site 1313172007975 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1313172007976 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1313172007977 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1313172007978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172007979 Walker A/P-loop; other site 1313172007980 ATP binding site [chemical binding]; other site 1313172007981 Q-loop/lid; other site 1313172007982 ABC transporter signature motif; other site 1313172007983 Walker B; other site 1313172007984 D-loop; other site 1313172007985 H-loop/switch region; other site 1313172007986 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1313172007987 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1313172007988 RF-1 domain; Region: RF-1; pfam00472 1313172007989 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1313172007990 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1313172007991 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1313172007992 nucleotide binding region [chemical binding]; other site 1313172007993 SEC-C motif; Region: SEC-C; pfam02810 1313172007994 Histidine kinase; Region: HisKA_3; pfam07730 1313172007995 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 1313172007996 ATP binding site [chemical binding]; other site 1313172007997 Mg2+ binding site [ion binding]; other site 1313172007998 G-X-G motif; other site 1313172007999 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172008000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172008001 active site 1313172008002 phosphorylation site [posttranslational modification] 1313172008003 intermolecular recognition site; other site 1313172008004 dimerization interface [polypeptide binding]; other site 1313172008005 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 1313172008006 DNA binding residues [nucleotide binding] 1313172008007 dimerization interface [polypeptide binding]; other site 1313172008008 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172008009 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172008010 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172008011 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172008012 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172008013 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172008014 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172008015 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1313172008016 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172008017 active site 1313172008018 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1313172008019 Predicted membrane protein [Function unknown]; Region: COG2364 1313172008020 Sulfocyanin (SoxE); Region: SoxE; cl17563 1313172008021 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1313172008022 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1313172008023 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1313172008024 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1313172008025 YhhN-like protein; Region: YhhN; pfam07947 1313172008026 Adenosylhomocysteinase; Provisional; Region: PTZ00075 1313172008027 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1313172008028 homotetramer interface [polypeptide binding]; other site 1313172008029 ligand binding site [chemical binding]; other site 1313172008030 catalytic site [active] 1313172008031 NAD binding site [chemical binding]; other site 1313172008032 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 1313172008033 Ligand Binding Site [chemical binding]; other site 1313172008034 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 1313172008035 Ligand Binding Site [chemical binding]; other site 1313172008036 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172008037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172008038 active site 1313172008039 phosphorylation site [posttranslational modification] 1313172008040 intermolecular recognition site; other site 1313172008041 dimerization interface [polypeptide binding]; other site 1313172008042 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 1313172008043 DNA binding residues [nucleotide binding] 1313172008044 dimerization interface [polypeptide binding]; other site 1313172008045 PAS fold; Region: PAS; pfam00989 1313172008046 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 1313172008047 putative active site [active] 1313172008048 heme pocket [chemical binding]; other site 1313172008049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1313172008050 Histidine kinase; Region: HisKA_3; pfam07730 1313172008051 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1313172008052 Mg2+ binding site [ion binding]; other site 1313172008053 G-X-G motif; other site 1313172008054 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1313172008055 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 1313172008056 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 1313172008057 active site 1313172008058 substrate binding site [chemical binding]; other site 1313172008059 metal binding site [ion binding]; metal-binding site 1313172008060 Predicted integral membrane protein [Function unknown]; Region: COG5617 1313172008061 CAAX protease self-immunity; Region: Abi; pfam02517 1313172008062 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 1313172008063 FtsH Extracellular; Region: FtsH_ext; pfam06480 1313172008064 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1313172008065 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 1313172008066 Walker A motif; other site 1313172008067 ATP binding site [chemical binding]; other site 1313172008068 Walker B motif; other site 1313172008069 arginine finger; other site 1313172008070 Peptidase family M41; Region: Peptidase_M41; pfam01434 1313172008071 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 1313172008072 catalytic residues [active] 1313172008073 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1313172008074 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 1313172008075 active site 1313172008076 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1313172008077 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1313172008078 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1313172008079 NADP-binding site; other site 1313172008080 homotetramer interface [polypeptide binding]; other site 1313172008081 substrate binding site [chemical binding]; other site 1313172008082 homodimer interface [polypeptide binding]; other site 1313172008083 active site 1313172008084 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 1313172008085 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172008086 LPPG:FO 2-phospho-L-lactate transferase; Provisional; Region: PRK13606 1313172008087 phosphate binding site [ion binding]; other site 1313172008088 dimer interface [polypeptide binding]; other site 1313172008089 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172008090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008091 NAD(P) binding site [chemical binding]; other site 1313172008092 active site 1313172008093 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 1313172008094 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1313172008095 active site 1313172008096 Substrate binding site; other site 1313172008097 Mg++ binding site; other site 1313172008098 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1313172008099 dimer interface [polypeptide binding]; other site 1313172008100 N-terminal domain interface [polypeptide binding]; other site 1313172008101 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1313172008102 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 1313172008103 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 1313172008104 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1313172008105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172008106 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 1313172008107 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172008108 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1313172008109 active site 1313172008110 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1313172008111 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1313172008112 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1313172008113 NADP binding site [chemical binding]; other site 1313172008114 active site 1313172008115 putative substrate binding site [chemical binding]; other site 1313172008116 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1313172008117 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1313172008118 substrate binding site; other site 1313172008119 tetramer interface; other site 1313172008120 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1313172008121 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1313172008122 NAD binding site [chemical binding]; other site 1313172008123 substrate binding site [chemical binding]; other site 1313172008124 homodimer interface [polypeptide binding]; other site 1313172008125 active site 1313172008126 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1313172008127 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1313172008128 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1313172008129 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1313172008130 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1313172008131 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1313172008132 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1313172008133 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1313172008134 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 1313172008135 carboxyltransferase (CT) interaction site; other site 1313172008136 biotinylation site [posttranslational modification]; other site 1313172008137 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1313172008138 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 1313172008139 putative DNA binding site [nucleotide binding]; other site 1313172008140 putative Zn2+ binding site [ion binding]; other site 1313172008141 AsnC family; Region: AsnC_trans_reg; pfam01037 1313172008142 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 1313172008143 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172008144 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172008145 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1313172008146 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1313172008147 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1313172008148 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1313172008149 dimer interface [polypeptide binding]; other site 1313172008150 putative anticodon binding site; other site 1313172008151 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1313172008152 motif 1; other site 1313172008153 active site 1313172008154 motif 2; other site 1313172008155 motif 3; other site 1313172008156 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 1313172008157 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 1313172008158 putative trimer interface [polypeptide binding]; other site 1313172008159 putative CoA binding site [chemical binding]; other site 1313172008160 oxidoreductase; Provisional; Region: PRK06196 1313172008161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008162 NAD(P) binding site [chemical binding]; other site 1313172008163 active site 1313172008164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1313172008165 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 1313172008166 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172008167 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1313172008168 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172008169 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1313172008170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1313172008171 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172008172 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1313172008173 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172008174 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1313172008175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1313172008176 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1313172008177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1313172008178 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1313172008179 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 1313172008180 nucleotide binding site [chemical binding]; other site 1313172008181 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1313172008182 FMN binding site [chemical binding]; other site 1313172008183 dimer interface [polypeptide binding]; other site 1313172008184 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1313172008185 ACT domain; Region: ACT_6; pfam13740 1313172008186 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1313172008187 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 1313172008188 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1313172008189 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1313172008190 active site 1313172008191 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 1313172008192 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 1313172008193 homotrimer interaction site [polypeptide binding]; other site 1313172008194 putative active site [active] 1313172008195 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1313172008196 EamA-like transporter family; Region: EamA; pfam00892 1313172008197 hypothetical protein; Provisional; Region: PRK06208 1313172008198 intersubunit interface [polypeptide binding]; other site 1313172008199 active site 1313172008200 Zn2+ binding site [ion binding]; other site 1313172008201 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1313172008202 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1313172008203 active site 1313172008204 iron coordination sites [ion binding]; other site 1313172008205 substrate binding pocket [chemical binding]; other site 1313172008206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1313172008207 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172008208 Zn2+ binding site [ion binding]; other site 1313172008209 Mg2+ binding site [ion binding]; other site 1313172008210 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 1313172008211 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 1313172008212 active site residue [active] 1313172008213 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 1313172008214 ATP binding site [chemical binding]; other site 1313172008215 substrate interface [chemical binding]; other site 1313172008216 EamA-like transporter family; Region: EamA; pfam00892 1313172008217 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1313172008218 EamA-like transporter family; Region: EamA; pfam00892 1313172008219 NAD-dependent deacetylase; Provisional; Region: PRK00481 1313172008220 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 1313172008221 NAD+ binding site [chemical binding]; other site 1313172008222 substrate binding site [chemical binding]; other site 1313172008223 Zn binding site [ion binding]; other site 1313172008224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1313172008225 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1313172008226 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1313172008227 G1 box; other site 1313172008228 putative GEF interaction site [polypeptide binding]; other site 1313172008229 GTP/Mg2+ binding site [chemical binding]; other site 1313172008230 Switch I region; other site 1313172008231 G2 box; other site 1313172008232 G3 box; other site 1313172008233 Switch II region; other site 1313172008234 G4 box; other site 1313172008235 G5 box; other site 1313172008236 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1313172008237 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 1313172008238 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172008239 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 1313172008240 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1313172008241 interface (dimer of trimers) [polypeptide binding]; other site 1313172008242 Substrate-binding/catalytic site; other site 1313172008243 Zn-binding sites [ion binding]; other site 1313172008244 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1313172008245 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 1313172008246 substrate binding pocket [chemical binding]; other site 1313172008247 membrane-bound complex binding site; other site 1313172008248 hinge residues; other site 1313172008249 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1313172008250 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 1313172008251 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 1313172008252 ABC-ATPase subunit interface; other site 1313172008253 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 1313172008254 dimer interface [polypeptide binding]; other site 1313172008255 conserved gate region; other site 1313172008256 putative PBP binding loops; other site 1313172008257 ABC-ATPase subunit interface; other site 1313172008258 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1313172008259 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1313172008260 Walker A/P-loop; other site 1313172008261 ATP binding site [chemical binding]; other site 1313172008262 Q-loop/lid; other site 1313172008263 ABC transporter signature motif; other site 1313172008264 Walker B; other site 1313172008265 D-loop; other site 1313172008266 H-loop/switch region; other site 1313172008267 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1313172008268 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1313172008269 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172008270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172008271 Walker A/P-loop; other site 1313172008272 ATP binding site [chemical binding]; other site 1313172008273 Q-loop/lid; other site 1313172008274 ABC transporter signature motif; other site 1313172008275 Walker B; other site 1313172008276 D-loop; other site 1313172008277 H-loop/switch region; other site 1313172008278 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1313172008279 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1313172008280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172008281 Walker A/P-loop; other site 1313172008282 ATP binding site [chemical binding]; other site 1313172008283 Q-loop/lid; other site 1313172008284 ABC transporter signature motif; other site 1313172008285 Walker B; other site 1313172008286 D-loop; other site 1313172008287 H-loop/switch region; other site 1313172008288 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172008289 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_cladeD; cd03379 1313172008290 active site clefts [active] 1313172008291 zinc binding site [ion binding]; other site 1313172008292 dimer interface [polypeptide binding]; other site 1313172008293 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 1313172008294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 1313172008295 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 1313172008296 putative substrate translocation pore; other site 1313172008297 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 1313172008298 active site 1313172008299 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1313172008300 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1313172008301 DNA binding residues [nucleotide binding] 1313172008302 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 1313172008303 S-adenosylmethionine binding site [chemical binding]; other site 1313172008304 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 1313172008305 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1313172008306 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1313172008307 nudix motif; other site 1313172008308 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1313172008309 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 1313172008310 active site 1313172008311 dimer interface [polypeptide binding]; other site 1313172008312 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172008313 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1313172008314 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 1313172008315 active site pocket [active] 1313172008316 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1313172008317 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172008318 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1313172008319 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1313172008320 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1313172008321 active site 1313172008322 Lactococcus lactis bacteriophage major capsid protein; Region: L_lactis_ph-MCP; pfam06673 1313172008323 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 1313172008324 generic binding surface II; other site 1313172008325 generic binding surface I; other site 1313172008326 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1313172008327 EamA-like transporter family; Region: EamA; pfam00892 1313172008328 EamA-like transporter family; Region: EamA; pfam00892 1313172008329 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1313172008330 nudix motif; other site 1313172008331 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172008332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172008333 active site 1313172008334 phosphorylation site [posttranslational modification] 1313172008335 intermolecular recognition site; other site 1313172008336 dimerization interface [polypeptide binding]; other site 1313172008337 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 1313172008338 DNA binding site [nucleotide binding] 1313172008339 DNA Polymerase Y-family; Region: PolY_like; cd03468 1313172008340 active site 1313172008341 DNA binding site [nucleotide binding] 1313172008342 Helix-turn-helix domain; Region: HTH_17; cl17695 1313172008343 B12 binding domain; Region: B12-binding_2; pfam02607 1313172008344 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1313172008345 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 1313172008346 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 1313172008347 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1313172008348 metal ion-dependent adhesion site (MIDAS); other site 1313172008349 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172008350 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1313172008351 SWIM zinc finger; Region: SWIM; pfam04434 1313172008352 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1313172008353 putative catalytic site [active] 1313172008354 putative metal binding site [ion binding]; other site 1313172008355 putative phosphate binding site [ion binding]; other site 1313172008356 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1313172008357 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172008358 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 1313172008359 DNA binding residues [nucleotide binding] 1313172008360 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1313172008361 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 1313172008362 S-adenosylmethionine binding site [chemical binding]; other site 1313172008363 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1313172008364 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 1313172008365 non-specific DNA binding site [nucleotide binding]; other site 1313172008366 salt bridge; other site 1313172008367 sequence-specific DNA binding site [nucleotide binding]; other site 1313172008368 Cupin domain; Region: Cupin_2; pfam07883 1313172008369 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 1313172008370 S-adenosylmethionine binding site [chemical binding]; other site 1313172008371 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1313172008372 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1313172008373 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1313172008374 lipoyl synthase; Provisional; Region: PRK05481 1313172008375 Flavivirus polyprotein propeptide; Region: Flavi_propep; pfam01570 1313172008376 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 1313172008377 FeS/SAM binding site; other site 1313172008378 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1313172008379 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 1313172008380 E3 interaction surface; other site 1313172008381 lipoyl attachment site [posttranslational modification]; other site 1313172008382 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1313172008383 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1313172008384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172008385 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1313172008386 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1313172008387 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1313172008388 putative NAD(P) binding site [chemical binding]; other site 1313172008389 putative active site [active] 1313172008390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172008391 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1313172008392 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172008393 hydrophobic ligand binding site; other site 1313172008394 MarR family; Region: MarR_2; pfam12802 1313172008395 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 1313172008396 heterotetramer interface [polypeptide binding]; other site 1313172008397 active site pocket [active] 1313172008398 cleavage site 1313172008399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008400 NAD(P) binding site [chemical binding]; other site 1313172008401 active site 1313172008402 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172008403 Stage II sporulation protein; Region: SpoIID; pfam08486 1313172008404 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172008405 catalytic triad [active] 1313172008406 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1313172008407 RNA/DNA hybrid binding site [nucleotide binding]; other site 1313172008408 active site 1313172008409 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 1313172008410 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1313172008411 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1313172008412 active site 1313172008413 catalytic triad [active] 1313172008414 oxyanion hole [active] 1313172008415 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1313172008416 active site 1313172008417 catalytic triad [active] 1313172008418 oxyanion hole [active] 1313172008419 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1313172008420 active site 1313172008421 catalytic triad [active] 1313172008422 oxyanion hole [active] 1313172008423 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172008424 active site 1313172008425 catalytic triad [active] 1313172008426 oxyanion hole [active] 1313172008427 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1313172008428 active site 1313172008429 catalytic triad [active] 1313172008430 oxyanion hole [active] 1313172008431 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1313172008432 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1313172008433 dimer interface [polypeptide binding]; other site 1313172008434 TPP-binding site [chemical binding]; other site 1313172008435 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1313172008436 Transposase IS200 like; Region: Y1_Tnp; cl00848 1313172008437 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; cl07055 1313172008438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008439 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1313172008440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008441 active site 1313172008442 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1313172008443 minor groove reading motif; other site 1313172008444 helix-hairpin-helix signature motif; other site 1313172008445 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1313172008446 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1313172008447 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 1313172008448 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172008449 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1313172008450 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172008451 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 1313172008452 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1313172008453 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 1313172008454 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172008455 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1313172008456 Probable Catalytic site; other site 1313172008457 metal-binding site 1313172008458 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172008459 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 1313172008460 active site 1313172008461 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 1313172008462 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1313172008463 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1313172008464 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1313172008465 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1313172008466 Walker A/P-loop; other site 1313172008467 ATP binding site [chemical binding]; other site 1313172008468 Q-loop/lid; other site 1313172008469 ABC transporter signature motif; other site 1313172008470 Walker B; other site 1313172008471 D-loop; other site 1313172008472 H-loop/switch region; other site 1313172008473 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1313172008474 putative carbohydrate binding site [chemical binding]; other site 1313172008475 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1313172008476 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1313172008477 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172008478 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1313172008479 Ligand binding site; other site 1313172008480 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1313172008481 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1313172008482 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 1313172008483 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 1313172008484 active site 1313172008485 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1313172008486 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1313172008487 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1313172008488 Walker A/P-loop; other site 1313172008489 ATP binding site [chemical binding]; other site 1313172008490 Q-loop/lid; other site 1313172008491 ABC transporter signature motif; other site 1313172008492 Walker B; other site 1313172008493 D-loop; other site 1313172008494 H-loop/switch region; other site 1313172008495 LicD family; Region: LicD; pfam04991 1313172008496 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 1313172008497 active site 1313172008498 LicD family; Region: LicD; pfam04991 1313172008499 LicD family; Region: LicD; pfam04991 1313172008500 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1313172008501 active site 1313172008502 metal-binding site 1313172008503 cytidylyltransferase; Region: cytidylyltransferase; cd02170 1313172008504 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1313172008505 active site 1313172008506 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1313172008507 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 1313172008508 tetramer interface [polypeptide binding]; other site 1313172008509 active site 1313172008510 Mg2+/Mn2+ binding site [ion binding]; other site 1313172008511 LicD family; Region: LicD; pfam04991 1313172008512 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1313172008513 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 1313172008514 PYR/PP interface [polypeptide binding]; other site 1313172008515 dimer interface [polypeptide binding]; other site 1313172008516 TPP binding site [chemical binding]; other site 1313172008517 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 1313172008518 TPP-binding site; other site 1313172008519 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1313172008520 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 1313172008521 putative active site [active] 1313172008522 metal binding site [ion binding]; metal-binding site 1313172008523 Staphylococcal nuclease homologues; Region: SNc; smart00318 1313172008524 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1313172008525 Catalytic site; other site 1313172008526 Lamin Tail Domain; Region: LTD; pfam00932 1313172008527 Lamin Tail Domain; Region: LTD; pfam00932 1313172008528 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1313172008529 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1313172008530 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1313172008531 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1313172008532 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1313172008533 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172008534 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 1313172008535 active site 1313172008536 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1313172008537 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1313172008538 active site 1313172008539 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1313172008540 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1313172008541 NADP-binding site; other site 1313172008542 homotetramer interface [polypeptide binding]; other site 1313172008543 substrate binding site [chemical binding]; other site 1313172008544 homodimer interface [polypeptide binding]; other site 1313172008545 active site 1313172008546 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1313172008547 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1313172008548 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1313172008549 NAD binding site [chemical binding]; other site 1313172008550 homodimer interface [polypeptide binding]; other site 1313172008551 active site 1313172008552 substrate binding site [chemical binding]; other site 1313172008553 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172008554 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1313172008555 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 1313172008556 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 1313172008557 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1313172008558 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1313172008559 active site 1313172008560 homodimer interface [polypeptide binding]; other site 1313172008561 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1313172008562 NeuB family; Region: NeuB; pfam03102 1313172008563 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1313172008564 NeuB binding interface [polypeptide binding]; other site 1313172008565 putative substrate binding site [chemical binding]; other site 1313172008566 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1313172008567 ligand binding site; other site 1313172008568 tetramer interface; other site 1313172008569 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1313172008570 trimer interface [polypeptide binding]; other site 1313172008571 active site 1313172008572 substrate binding site [chemical binding]; other site 1313172008573 CoA binding site [chemical binding]; other site 1313172008574 MT-A70; Region: MT-A70; cl01947 1313172008575 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 1313172008576 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1313172008577 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1313172008578 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 1313172008579 active site 1313172008580 catalytic residues [active] 1313172008581 DNA binding site [nucleotide binding] 1313172008582 Int/Topo IB signature motif; other site 1313172008583 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1313172008584 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1313172008585 catalytic residues [active] 1313172008586 catalytic nucleophile [active] 1313172008587 Recombinase; Region: Recombinase; pfam07508 1313172008588 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 1313172008589 active site 1313172008590 metal binding site [ion binding]; metal-binding site 1313172008591 interdomain interaction site; other site 1313172008592 putative lipid kinase; Reviewed; Region: PRK13057 1313172008593 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1313172008594 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 1313172008595 S-adenosylmethionine binding site [chemical binding]; other site 1313172008596 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172008597 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1313172008598 active site 1313172008599 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1313172008600 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1313172008601 putative active site [active] 1313172008602 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 1313172008603 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1313172008604 domain interfaces; other site 1313172008605 active site 1313172008606 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1313172008607 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1313172008608 B12 binding site [chemical binding]; other site 1313172008609 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 1313172008610 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1313172008611 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1313172008612 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172008613 Cytochrome P450; Region: p450; cl12078 1313172008614 PhoD-like phosphatase; Region: PhoD; pfam09423 1313172008615 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1313172008616 putative active site [active] 1313172008617 putative metal binding site [ion binding]; other site 1313172008618 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1313172008619 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1313172008620 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1313172008621 NAD binding site [chemical binding]; other site 1313172008622 catalytic residues [active] 1313172008623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008624 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172008625 NAD(P) binding site [chemical binding]; other site 1313172008626 active site 1313172008627 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172008628 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1313172008629 putative active site [active] 1313172008630 putative substrate binding site [chemical binding]; other site 1313172008631 ATP binding site [chemical binding]; other site 1313172008632 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 1313172008633 active site 1313172008634 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1313172008635 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 1313172008636 active site 1313172008637 dimer interface [polypeptide binding]; other site 1313172008638 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 1313172008639 dimer interface [polypeptide binding]; other site 1313172008640 active site 1313172008641 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1313172008642 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1313172008643 EamA-like transporter family; Region: EamA; cl17759 1313172008644 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172008645 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 1313172008646 substrate binding site [chemical binding]; other site 1313172008647 oxyanion hole (OAH) forming residues; other site 1313172008648 trimer interface [polypeptide binding]; other site 1313172008649 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172008650 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1313172008651 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 1313172008652 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172008653 TM-ABC transporter signature motif; other site 1313172008654 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172008655 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 1313172008656 TM-ABC transporter signature motif; other site 1313172008657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1313172008658 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1313172008659 Walker A/P-loop; other site 1313172008660 ATP binding site [chemical binding]; other site 1313172008661 Q-loop/lid; other site 1313172008662 ABC transporter signature motif; other site 1313172008663 Walker B; other site 1313172008664 D-loop; other site 1313172008665 H-loop/switch region; other site 1313172008666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1313172008667 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1313172008668 Walker A/P-loop; other site 1313172008669 ATP binding site [chemical binding]; other site 1313172008670 Q-loop/lid; other site 1313172008671 ABC transporter signature motif; other site 1313172008672 Walker B; other site 1313172008673 D-loop; other site 1313172008674 H-loop/switch region; other site 1313172008675 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1313172008676 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172008677 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1313172008678 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172008679 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1313172008680 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172008681 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1313172008682 Ligand binding site; other site 1313172008683 Putative Catalytic site; other site 1313172008684 DXD motif; other site 1313172008685 argininosuccinate synthase; Validated; Region: PRK05370 1313172008686 argininosuccinate synthase; Provisional; Region: PRK13820 1313172008687 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1313172008688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008689 NAD(P) binding site [chemical binding]; other site 1313172008690 active site 1313172008691 hypothetical protein; Provisional; Region: PRK07338 1313172008692 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1313172008693 metal binding site [ion binding]; metal-binding site 1313172008694 dimer interface [polypeptide binding]; other site 1313172008695 Predicted acyl esterases [General function prediction only]; Region: COG2936 1313172008696 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 1313172008697 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 1313172008698 salt bridge; other site 1313172008699 non-specific DNA binding site [nucleotide binding]; other site 1313172008700 sequence-specific DNA binding site [nucleotide binding]; other site 1313172008701 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1313172008702 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1313172008703 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1313172008704 nucleotide binding site [chemical binding]; other site 1313172008705 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 1313172008706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172008707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172008708 active site 1313172008709 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 1313172008710 catalytic loop [active] 1313172008711 iron binding site [ion binding]; other site 1313172008712 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1313172008713 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; pfam04879 1313172008714 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1313172008715 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172008716 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1313172008717 SLBB domain; Region: SLBB; pfam10531 1313172008718 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1313172008719 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1313172008720 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 1313172008721 molybdopterin cofactor binding site; other site 1313172008722 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1313172008723 molybdopterin cofactor binding site; other site 1313172008724 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172008725 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1313172008726 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 1313172008727 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172008728 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1313172008729 Copper type II ascorbate-dependent monooxygenase, N-terminal domain; Region: Cu2_monooxygen; pfam01082 1313172008730 Copper type II ascorbate-dependent monooxygenase, C-terminal domain; Region: Cu2_monoox_C; pfam03712 1313172008731 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1313172008732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172008733 Zn binding site [ion binding]; other site 1313172008734 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 1313172008735 ATP binding site [chemical binding]; other site 1313172008736 putative Mg++ binding site [ion binding]; other site 1313172008737 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 1313172008738 nucleotide binding region [chemical binding]; other site 1313172008739 ATP-binding site [chemical binding]; other site 1313172008740 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 1313172008741 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172008742 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172008743 putative acyl-acceptor binding pocket; other site 1313172008744 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172008745 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1313172008746 acyl-activating enzyme (AAE) consensus motif; other site 1313172008747 AMP binding site [chemical binding]; other site 1313172008748 active site 1313172008749 CoA binding site [chemical binding]; other site 1313172008750 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1313172008751 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1313172008752 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172008753 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172008754 putative acyl-acceptor binding pocket; other site 1313172008755 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1313172008756 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1313172008757 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172008758 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172008759 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172008760 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172008761 Sulfatase; Region: Sulfatase; cl17466 1313172008762 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172008763 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1313172008764 Walker A/P-loop; other site 1313172008765 ATP binding site [chemical binding]; other site 1313172008766 Q-loop/lid; other site 1313172008767 ABC transporter signature motif; other site 1313172008768 Walker B; other site 1313172008769 D-loop; other site 1313172008770 H-loop/switch region; other site 1313172008771 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1313172008772 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172008773 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1313172008774 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 1313172008775 CpXC protein; Region: CpXC; pfam14353 1313172008776 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1313172008777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172008778 Walker A/P-loop; other site 1313172008779 ATP binding site [chemical binding]; other site 1313172008780 Q-loop/lid; other site 1313172008781 ABC transporter signature motif; other site 1313172008782 Walker B; other site 1313172008783 D-loop; other site 1313172008784 H-loop/switch region; other site 1313172008785 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172008786 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 1313172008787 active site 1313172008788 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 1313172008789 acyl-CoA synthetase; Validated; Region: PRK07798 1313172008790 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172008791 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 1313172008792 acyl-activating enzyme (AAE) consensus motif; other site 1313172008793 acyl-activating enzyme (AAE) consensus motif; other site 1313172008794 putative AMP binding site [chemical binding]; other site 1313172008795 putative active site [active] 1313172008796 putative CoA binding site [chemical binding]; other site 1313172008797 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172008798 Cytochrome P450; Region: p450; cl12078 1313172008799 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1313172008800 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1313172008801 active site 1313172008802 Zn binding site [ion binding]; other site 1313172008803 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172008804 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1313172008805 putative acyl-acceptor binding pocket; other site 1313172008806 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172008807 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 1313172008808 [2Fe-2S] cluster binding site [ion binding]; other site 1313172008809 Ring hydroxylating alpha subunit (catalytic domain); Region: Ring_hydroxyl_A; pfam00848 1313172008810 hydrophobic ligand binding site; other site 1313172008811 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1313172008812 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1313172008813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172008814 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172008815 NAD(P) binding site [chemical binding]; other site 1313172008816 active site 1313172008817 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 1313172008818 active site 2 [active] 1313172008819 active site 1 [active] 1313172008820 hypothetical protein; Provisional; Region: PRK07538 1313172008821 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1313172008822 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172008823 GAF domain; Region: GAF; pfam01590 1313172008824 PAS fold; Region: PAS_4; pfam08448 1313172008825 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1313172008826 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 1313172008827 anti sigma factor interaction site; other site 1313172008828 regulatory phosphorylation site [posttranslational modification]; other site 1313172008829 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172008830 Sulfatase; Region: Sulfatase; cl17466 1313172008831 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1313172008832 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1313172008833 potential catalytic triad [active] 1313172008834 conserved cys residue [active] 1313172008835 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1313172008836 putative hydrophobic ligand binding site [chemical binding]; other site 1313172008837 gate; other site 1313172008838 haloalkane dehalogenase; Provisional; Region: PRK00870 1313172008839 ribonuclease Z; Reviewed; Region: PRK00055 1313172008840 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172008841 Sulfatase; Region: Sulfatase; pfam00884 1313172008842 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 1313172008843 dimerization interface [polypeptide binding]; other site 1313172008844 putative DNA binding site [nucleotide binding]; other site 1313172008845 putative Zn2+ binding site [ion binding]; other site 1313172008846 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1313172008847 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1313172008848 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1313172008849 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172008850 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 1313172008851 substrate binding site [chemical binding]; other site 1313172008852 oxyanion hole (OAH) forming residues; other site 1313172008853 trimer interface [polypeptide binding]; other site 1313172008854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1313172008855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172008856 Coenzyme A binding pocket [chemical binding]; other site 1313172008857 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172008858 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1313172008859 YibE/F-like protein; Region: YibE_F; pfam07907 1313172008860 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1313172008861 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1313172008862 catalytic Zn binding site [ion binding]; other site 1313172008863 NAD binding site [chemical binding]; other site 1313172008864 structural Zn binding site [ion binding]; other site 1313172008865 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172008866 classical (c) SDRs; Region: SDR_c; cd05233 1313172008867 NAD(P) binding site [chemical binding]; other site 1313172008868 active site 1313172008869 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1313172008870 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1313172008871 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1313172008872 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1313172008873 putative active site [active] 1313172008874 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172008875 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172008876 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1313172008877 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1313172008878 putative hydrophobic ligand binding site [chemical binding]; other site 1313172008879 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 1313172008880 dimerization interface [polypeptide binding]; other site 1313172008881 putative DNA binding site [nucleotide binding]; other site 1313172008882 putative Zn2+ binding site [ion binding]; other site 1313172008883 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 1313172008884 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1313172008885 NAD(P) binding site [chemical binding]; other site 1313172008886 catalytic residues [active] 1313172008887 MMPL family; Region: MMPL; pfam03176 1313172008888 MMPL family; Region: MMPL; pfam03176 1313172008889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172008890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172008891 active site 1313172008892 phosphorylation site [posttranslational modification] 1313172008893 intermolecular recognition site; other site 1313172008894 dimerization interface [polypeptide binding]; other site 1313172008895 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 1313172008896 DNA binding site [nucleotide binding] 1313172008897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172008898 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 1313172008899 dimerization interface [polypeptide binding]; other site 1313172008900 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 1313172008901 dimer interface [polypeptide binding]; other site 1313172008902 phosphorylation site [posttranslational modification] 1313172008903 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 1313172008904 ATP binding site [chemical binding]; other site 1313172008905 Mg2+ binding site [ion binding]; other site 1313172008906 G-X-G motif; other site 1313172008907 MarR family; Region: MarR_2; cl17246 1313172008908 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1313172008909 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1313172008910 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1313172008911 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1313172008912 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1313172008913 active site 1313172008914 catalytic site [active] 1313172008915 oligosaccharide amylase; Region: oligosac_amyl; TIGR01577 1313172008916 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1313172008917 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1313172008918 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1313172008919 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172008920 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 1313172008921 dimer interface [polypeptide binding]; other site 1313172008922 conserved gate region; other site 1313172008923 putative PBP binding loops; other site 1313172008924 ABC-ATPase subunit interface; other site 1313172008925 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1313172008926 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 1313172008927 dimer interface [polypeptide binding]; other site 1313172008928 putative PBP binding loops; other site 1313172008929 ABC-ATPase subunit interface; other site 1313172008930 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1313172008931 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 1313172008932 DNA binding residues [nucleotide binding] 1313172008933 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1313172008934 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 1313172008935 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172008936 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1313172008937 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 1313172008938 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172008939 TM-ABC transporter signature motif; other site 1313172008940 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1313172008941 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1313172008942 Walker A/P-loop; other site 1313172008943 ATP binding site [chemical binding]; other site 1313172008944 Q-loop/lid; other site 1313172008945 ABC transporter signature motif; other site 1313172008946 Walker B; other site 1313172008947 D-loop; other site 1313172008948 H-loop/switch region; other site 1313172008949 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1313172008950 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 1313172008951 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1313172008952 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1313172008953 nucleotide binding site [chemical binding]; other site 1313172008954 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1313172008955 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 1313172008956 PYR/PP interface [polypeptide binding]; other site 1313172008957 dimer interface [polypeptide binding]; other site 1313172008958 TPP binding site [chemical binding]; other site 1313172008959 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1313172008960 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 1313172008961 TPP-binding site [chemical binding]; other site 1313172008962 dimer interface [polypeptide binding]; other site 1313172008963 Predicted membrane protein [Function unknown]; Region: COG2119 1313172008964 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1313172008965 CopC domain; Region: CopC; cl01012 1313172008966 Cytochrome c; Region: Cytochrom_C; pfam00034 1313172008967 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1313172008968 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1313172008969 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1313172008970 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172008971 Inner membrane protein CreD; Region: CreD; cl01844 1313172008972 Domain of unknown function (DUF305); Region: DUF305; cl17794 1313172008973 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1313172008974 metal-binding site [ion binding] 1313172008975 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1313172008976 metal-binding site [ion binding] 1313172008977 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1313172008978 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1313172008979 metal-binding site [ion binding] 1313172008980 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1313172008981 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1313172008982 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1313172008983 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172008984 DNA binding residues [nucleotide binding] 1313172008985 dimer interface [polypeptide binding]; other site 1313172008986 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1313172008987 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1313172008988 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 1313172008989 motif II; other site 1313172008990 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172008991 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172008992 cytosine deaminase; Provisional; Region: PRK05985 1313172008993 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1313172008994 active site 1313172008995 Glutaminase; Region: Glutaminase; cl00907 1313172008996 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1313172008997 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1313172008998 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 1313172008999 sequence-specific DNA binding site [nucleotide binding]; other site 1313172009000 salt bridge; other site 1313172009001 Cupin domain; Region: Cupin_2; pfam07883 1313172009002 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1313172009003 glutamate dehydrogenase; Provisional; Region: PRK09414 1313172009004 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1313172009005 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1313172009006 NAD(P) binding site [chemical binding]; other site 1313172009007 Ferritin-like domain; Region: Ferritin; pfam00210 1313172009008 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1313172009009 dinuclear metal binding motif [ion binding]; other site 1313172009010 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1313172009011 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1313172009012 putative ligand binding site [chemical binding]; other site 1313172009013 putative NAD binding site [chemical binding]; other site 1313172009014 catalytic site [active] 1313172009015 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 1313172009016 Ligand Binding Site [chemical binding]; other site 1313172009017 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1313172009018 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1313172009019 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1313172009020 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1313172009021 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1313172009022 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1313172009023 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1313172009024 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 1313172009025 motif II; other site 1313172009026 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1313172009027 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 1313172009028 Ligand Binding Site [chemical binding]; other site 1313172009029 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 1313172009030 Ligand Binding Site [chemical binding]; other site 1313172009031 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172009032 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1313172009033 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 1313172009034 putative trimer interface [polypeptide binding]; other site 1313172009035 putative CoA binding site [chemical binding]; other site 1313172009036 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 1313172009037 Ligand Binding Site [chemical binding]; other site 1313172009038 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1313172009039 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1313172009040 putative substrate binding site [chemical binding]; other site 1313172009041 putative ATP binding site [chemical binding]; other site 1313172009042 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009043 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009044 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1313172009045 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 1313172009046 putative substrate translocation pore; other site 1313172009047 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 1313172009048 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1313172009049 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1313172009050 Beta-Casp domain; Region: Beta-Casp; smart01027 1313172009051 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1313172009052 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172009053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172009054 active site 1313172009055 phosphorylation site [posttranslational modification] 1313172009056 intermolecular recognition site; other site 1313172009057 dimerization interface [polypeptide binding]; other site 1313172009058 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 1313172009059 DNA binding site [nucleotide binding] 1313172009060 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1313172009061 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 1313172009062 dimerization interface [polypeptide binding]; other site 1313172009063 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 1313172009064 dimer interface [polypeptide binding]; other site 1313172009065 phosphorylation site [posttranslational modification] 1313172009066 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 1313172009067 ATP binding site [chemical binding]; other site 1313172009068 Mg2+ binding site [ion binding]; other site 1313172009069 G-X-G motif; other site 1313172009070 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172009071 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172009072 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172009073 Walker A/P-loop; other site 1313172009074 ATP binding site [chemical binding]; other site 1313172009075 Q-loop/lid; other site 1313172009076 ABC transporter signature motif; other site 1313172009077 Walker B; other site 1313172009078 D-loop; other site 1313172009079 H-loop/switch region; other site 1313172009080 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1313172009081 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172009082 FtsX-like permease family; Region: FtsX; pfam02687 1313172009083 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172009084 HlyD family secretion protein; Region: HlyD_3; pfam13437 1313172009085 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 1313172009086 dimerization interface [polypeptide binding]; other site 1313172009087 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172009088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172009089 metal binding site [ion binding]; metal-binding site 1313172009090 active site 1313172009091 I-site; other site 1313172009092 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172009093 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 1313172009094 putative substrate translocation pore; other site 1313172009095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009097 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 1313172009098 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1313172009099 molybdopterin cofactor binding site; other site 1313172009100 The MopB_CT_1 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_1; cd02782 1313172009101 putative molybdopterin cofactor binding site; other site 1313172009102 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1313172009103 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 1313172009104 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1313172009105 active site 1313172009106 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172009107 GAF domain; Region: GAF; pfam01590 1313172009108 ANTAR domain; Region: ANTAR; pfam03861 1313172009109 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 1313172009110 anti sigma factor interaction site; other site 1313172009111 regulatory phosphorylation site [posttranslational modification]; other site 1313172009112 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1313172009113 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 1313172009114 active site 1313172009115 DNA binding site [nucleotide binding] 1313172009116 Int/Topo IB signature motif; other site 1313172009117 Cupin domain; Region: Cupin_2; cl17218 1313172009118 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 1313172009119 anti sigma factor interaction site; other site 1313172009120 regulatory phosphorylation site [posttranslational modification]; other site 1313172009121 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1313172009122 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 1313172009123 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172009124 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 1313172009125 DNA binding residues [nucleotide binding] 1313172009126 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1313172009127 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 1313172009128 S-adenosylmethionine binding site [chemical binding]; other site 1313172009129 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1313172009130 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1313172009131 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 1313172009132 active site 1313172009133 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1313172009134 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1313172009135 proposed catalytic triad [active] 1313172009136 conserved cys residue [active] 1313172009137 MgtC family; Region: MgtC; pfam02308 1313172009138 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1313172009139 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1313172009140 Walker A/P-loop; other site 1313172009141 ATP binding site [chemical binding]; other site 1313172009142 Q-loop/lid; other site 1313172009143 ABC transporter signature motif; other site 1313172009144 Walker B; other site 1313172009145 D-loop; other site 1313172009146 H-loop/switch region; other site 1313172009147 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1313172009148 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1313172009149 DNA binding site [nucleotide binding] 1313172009150 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172009151 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172009152 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 1313172009153 dimer interface [polypeptide binding]; other site 1313172009154 conserved gate region; other site 1313172009155 putative PBP binding loops; other site 1313172009156 ABC-ATPase subunit interface; other site 1313172009157 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 1313172009158 dimer interface [polypeptide binding]; other site 1313172009159 conserved gate region; other site 1313172009160 putative PBP binding loops; other site 1313172009161 ABC-ATPase subunit interface; other site 1313172009162 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1313172009163 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1313172009164 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 1313172009165 active site 1313172009166 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1313172009167 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 1313172009168 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1313172009169 active site 1313172009170 catalytic site [active] 1313172009171 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1313172009172 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172009173 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172009174 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172009175 Cytochrome P450; Region: p450; cl12078 1313172009176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009178 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172009179 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1313172009180 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172009181 intersubunit interface [polypeptide binding]; other site 1313172009182 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009183 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009184 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1313172009185 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 1313172009186 putative substrate translocation pore; other site 1313172009187 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172009188 classical (c) SDRs; Region: SDR_c; cd05233 1313172009189 NAD(P) binding site [chemical binding]; other site 1313172009190 active site 1313172009191 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009192 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009193 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172009194 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172009195 active site 1313172009196 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1313172009197 putative active site [active] 1313172009198 putative substrate binding site [chemical binding]; other site 1313172009199 ATP binding site [chemical binding]; other site 1313172009200 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1313172009201 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1313172009202 NAD(P) binding site [chemical binding]; other site 1313172009203 FMN binding site [chemical binding]; other site 1313172009204 Nitroreductase family; Region: Nitroreductase; pfam00881 1313172009205 dimer interface [polypeptide binding]; other site 1313172009206 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1313172009207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1313172009208 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1313172009209 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1313172009210 substrate binding pocket [chemical binding]; other site 1313172009211 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009212 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009213 Asp23 family; Region: Asp23; pfam03780 1313172009214 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172009215 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172009216 active site 1313172009217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009219 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172009220 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172009221 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1313172009222 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 1313172009223 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172009224 substrate binding site [chemical binding]; other site 1313172009225 oxyanion hole (OAH) forming residues; other site 1313172009226 trimer interface [polypeptide binding]; other site 1313172009227 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1313172009228 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1313172009229 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1313172009230 NADP binding site [chemical binding]; other site 1313172009231 active site 1313172009232 putative substrate binding site [chemical binding]; other site 1313172009233 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1313172009234 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1313172009235 TrkA-C domain; Region: TrkA_C; pfam02080 1313172009236 TrkA-C domain; Region: TrkA_C; pfam02080 1313172009237 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1313172009238 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1313172009239 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1313172009240 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1313172009241 CysD dimerization site [polypeptide binding]; other site 1313172009242 G1 box; other site 1313172009243 putative GEF interaction site [polypeptide binding]; other site 1313172009244 GTP/Mg2+ binding site [chemical binding]; other site 1313172009245 Switch I region; other site 1313172009246 G2 box; other site 1313172009247 G3 box; other site 1313172009248 Switch II region; other site 1313172009249 G4 box; other site 1313172009250 G5 box; other site 1313172009251 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 1313172009252 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 1313172009253 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1313172009254 ligand-binding site [chemical binding]; other site 1313172009255 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1313172009256 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 1313172009257 Active Sites [active] 1313172009258 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 1313172009259 active site 1313172009260 putative lithium-binding site [ion binding]; other site 1313172009261 substrate binding site [chemical binding]; other site 1313172009262 Predicted transcriptional regulator [Transcription]; Region: COG1959 1313172009263 Transcriptional regulator; Region: Rrf2; pfam02082 1313172009264 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172009265 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1313172009266 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1313172009267 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1313172009268 structural tetrad; other site 1313172009269 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1313172009270 structural tetrad; other site 1313172009271 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172009272 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 1313172009273 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172009274 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172009275 hypothetical protein; Provisional; Region: PRK07945 1313172009276 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1313172009277 active site 1313172009278 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1313172009279 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1313172009280 putative active site [active] 1313172009281 GTP-binding protein YchF; Reviewed; Region: PRK09601 1313172009282 YchF GTPase; Region: YchF; cd01900 1313172009283 G1 box; other site 1313172009284 GTP/Mg2+ binding site [chemical binding]; other site 1313172009285 Switch I region; other site 1313172009286 G2 box; other site 1313172009287 Switch II region; other site 1313172009288 G3 box; other site 1313172009289 G4 box; other site 1313172009290 G5 box; other site 1313172009291 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1313172009292 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1313172009293 Predicted methyltransferases [General function prediction only]; Region: COG0313 1313172009294 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1313172009295 putative SAM binding site [chemical binding]; other site 1313172009296 putative homodimer interface [polypeptide binding]; other site 1313172009297 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1313172009298 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 1313172009299 active site 1313172009300 motif I; other site 1313172009301 motif II; other site 1313172009302 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1313172009303 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 1313172009304 active site 2 [active] 1313172009305 active site 1 [active] 1313172009306 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1313172009307 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1313172009308 active site 1313172009309 HIGH motif; other site 1313172009310 KMSKS motif; other site 1313172009311 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1313172009312 tRNA binding surface [nucleotide binding]; other site 1313172009313 anticodon binding site; other site 1313172009314 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1313172009315 active site 1313172009316 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1313172009317 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1313172009318 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 1313172009319 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 1313172009320 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1313172009321 Substrate binding site; other site 1313172009322 Mg++ binding site; other site 1313172009323 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 1313172009324 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1313172009325 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 1313172009326 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172009327 active site 1313172009328 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1313172009329 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1313172009330 5S rRNA interface [nucleotide binding]; other site 1313172009331 CTC domain interface [polypeptide binding]; other site 1313172009332 L16 interface [polypeptide binding]; other site 1313172009333 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 1313172009334 putative active site [active] 1313172009335 catalytic residue [active] 1313172009336 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1313172009337 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1313172009338 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 1313172009339 ATP binding site [chemical binding]; other site 1313172009340 putative Mg++ binding site [ion binding]; other site 1313172009341 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 1313172009342 nucleotide binding region [chemical binding]; other site 1313172009343 ATP-binding site [chemical binding]; other site 1313172009344 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1313172009345 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 1313172009346 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 1313172009347 active site 1313172009348 homodimer interface [polypeptide binding]; other site 1313172009349 SAM binding site [chemical binding]; other site 1313172009350 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 1313172009351 homodimer interface [polypeptide binding]; other site 1313172009352 metal binding site [ion binding]; metal-binding site 1313172009353 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 1313172009354 homodimer interface [polypeptide binding]; other site 1313172009355 active site 1313172009356 putative chemical substrate binding site [chemical binding]; other site 1313172009357 metal binding site [ion binding]; metal-binding site 1313172009358 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1313172009359 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 1313172009360 enolase; Provisional; Region: eno; PRK00077 1313172009361 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 1313172009362 dimer interface [polypeptide binding]; other site 1313172009363 metal binding site [ion binding]; metal-binding site 1313172009364 substrate binding pocket [chemical binding]; other site 1313172009365 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 1313172009366 putative hydrophobic ligand binding site [chemical binding]; other site 1313172009367 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1313172009368 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 1313172009369 DNA binding site [nucleotide binding] 1313172009370 catalytic residue [active] 1313172009371 H2TH interface [polypeptide binding]; other site 1313172009372 putative catalytic residues [active] 1313172009373 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1313172009374 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1313172009375 Septum formation initiator; Region: DivIC; pfam04977 1313172009376 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1313172009377 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1313172009378 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172009379 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1313172009380 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1313172009381 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1313172009382 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172009383 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1313172009384 Ion channel; Region: Ion_trans_2; pfam07885 1313172009385 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1313172009386 TrkA-N domain; Region: TrkA_N; pfam02254 1313172009387 TrkA-C domain; Region: TrkA_C; pfam02080 1313172009388 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1313172009389 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 1313172009390 motif II; other site 1313172009391 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1313172009392 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1313172009393 cobalamin binding residues [chemical binding]; other site 1313172009394 putative BtuC binding residues; other site 1313172009395 dimer interface [polypeptide binding]; other site 1313172009396 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1313172009397 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 1313172009398 catalytic loop [active] 1313172009399 iron binding site [ion binding]; other site 1313172009400 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1313172009401 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 1313172009402 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1313172009403 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172009404 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1313172009405 FAD binding domain; Region: FAD_binding_4; pfam01565 1313172009406 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1313172009407 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1313172009408 active site 1313172009409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172009410 NAD(P) binding site [chemical binding]; other site 1313172009411 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1313172009412 active site 1313172009413 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 1313172009414 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1313172009415 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1313172009416 active site 1313172009417 catalytic site [active] 1313172009418 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172009419 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1313172009420 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1313172009421 metal ion-dependent adhesion site (MIDAS); other site 1313172009422 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1313172009423 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1313172009424 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1313172009425 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1313172009426 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1313172009427 NlpC/P60 family; Region: NLPC_P60; cl17555 1313172009428 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1313172009429 Ligand binding site; other site 1313172009430 metal-binding site 1313172009431 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1313172009432 putative hydrophobic ligand binding site [chemical binding]; other site 1313172009433 Protein of unknown function (DUF501); Region: DUF501; cl00652 1313172009434 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1313172009435 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1313172009436 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1313172009437 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1313172009438 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1313172009439 putative DNA binding site [nucleotide binding]; other site 1313172009440 putative Zn2+ binding site [ion binding]; other site 1313172009441 AsnC family; Region: AsnC_trans_reg; pfam01037 1313172009442 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1313172009443 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1313172009444 dimer interface [polypeptide binding]; other site 1313172009445 PYR/PP interface [polypeptide binding]; other site 1313172009446 TPP binding site [chemical binding]; other site 1313172009447 substrate binding site [chemical binding]; other site 1313172009448 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 1313172009449 TPP-binding site [chemical binding]; other site 1313172009450 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1313172009451 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172009452 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 1313172009453 Walker A motif; other site 1313172009454 ATP binding site [chemical binding]; other site 1313172009455 Walker B motif; other site 1313172009456 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1313172009457 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172009458 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172009459 enoyl-CoA hydratase; Provisional; Region: PRK05870 1313172009460 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 1313172009461 substrate binding site [chemical binding]; other site 1313172009462 oxyanion hole (OAH) forming residues; other site 1313172009463 trimer interface [polypeptide binding]; other site 1313172009464 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1313172009465 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1313172009466 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009467 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009468 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009469 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009470 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009471 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009472 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1313172009473 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1313172009474 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1313172009475 homodimer interface [polypeptide binding]; other site 1313172009476 NADP binding site [chemical binding]; other site 1313172009477 substrate binding site [chemical binding]; other site 1313172009478 Transposase IS200 like; Region: Y1_Tnp; cl00848 1313172009479 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 1313172009480 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 1313172009481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1313172009482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1313172009483 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 1313172009484 dimerization interface [polypeptide binding]; other site 1313172009485 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1313172009486 hypothetical protein; Provisional; Region: PRK06110 1313172009487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172009488 catalytic residue [active] 1313172009489 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1313172009490 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1313172009491 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 1313172009492 Bacterial Ig-like domain; Region: Big_5; pfam13205 1313172009493 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1313172009494 MG2 domain; Region: A2M_N; pfam01835 1313172009495 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1313172009496 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1313172009497 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1313172009498 Beta-lactamase; Region: Beta-lactamase; pfam00144 1313172009499 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1313172009500 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1313172009501 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1313172009502 TrkA-C domain; Region: TrkA_C; pfam02080 1313172009503 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1313172009504 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1313172009505 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1313172009506 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 1313172009507 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 1313172009508 active site 1313172009509 Fe binding site [ion binding]; other site 1313172009510 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1313172009511 Helix-turn-helix domain; Region: HTH_18; pfam12833 1313172009512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1313172009513 LemA family; Region: LemA; cl00742 1313172009514 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1313172009515 Domain of unknown function DUF11; Region: DUF11; cl17728 1313172009516 Domain of unknown function DUF11; Region: DUF11; cl17728 1313172009517 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009518 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009519 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009520 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009521 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009522 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009523 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1313172009524 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172009525 SEC-C motif; Region: SEC-C; pfam02810 1313172009526 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1313172009527 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1313172009528 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1313172009529 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1313172009530 GatB domain; Region: GatB_Yqey; smart00845 1313172009531 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1313172009532 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1313172009533 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1313172009534 Helix-turn-helix domain; Region: HTH_17; pfam12728 1313172009535 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 1313172009536 dimer interface [polypeptide binding]; other site 1313172009537 Citrate synthase; Region: Citrate_synt; pfam00285 1313172009538 active site 1313172009539 oxalacetate/citrate binding site [chemical binding]; other site 1313172009540 citrylCoA binding site [chemical binding]; other site 1313172009541 coenzyme A binding site [chemical binding]; other site 1313172009542 catalytic triad [active] 1313172009543 hypothetical protein; Provisional; Region: PRK01346 1313172009544 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1313172009545 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1313172009546 active site 1313172009547 nucleophile elbow; other site 1313172009548 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1313172009549 Melibiase; Region: Melibiase; pfam02065 1313172009550 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1313172009551 Esterase/lipase [General function prediction only]; Region: COG1647 1313172009552 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1313172009553 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1313172009554 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1313172009555 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 1313172009556 binding surface 1313172009557 TPR motif; other site 1313172009558 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1313172009559 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 1313172009560 binding surface 1313172009561 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1313172009562 TPR motif; other site 1313172009563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172009564 Zn2+ binding site [ion binding]; other site 1313172009565 Mg2+ binding site [ion binding]; other site 1313172009566 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1313172009567 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1313172009568 putative deacylase active site [active] 1313172009569 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 1313172009570 active site 1313172009571 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1313172009572 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172009573 DNA binding residues [nucleotide binding] 1313172009574 drug binding residues [chemical binding]; other site 1313172009575 dimer interface [polypeptide binding]; other site 1313172009576 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1313172009577 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172009578 active site 1313172009579 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 1313172009580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172009581 putative substrate translocation pore; other site 1313172009582 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1313172009583 lipid-transfer protein; Provisional; Region: PRK08256 1313172009584 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1313172009585 active site 1313172009586 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172009587 classical (c) SDRs; Region: SDR_c; cd05233 1313172009588 NAD(P) binding site [chemical binding]; other site 1313172009589 active site 1313172009590 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1313172009591 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 1313172009592 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172009593 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 1313172009594 DNA binding residues [nucleotide binding] 1313172009595 superantigen-like protein; Reviewed; Region: PRK13042 1313172009596 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172009597 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 1313172009598 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009599 Cna protein B-type domain; Region: Cna_B; pfam05738 1313172009600 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009601 Cna protein B-type domain; Region: Cna_B; pfam05738 1313172009602 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009603 Cna protein B-type domain; Region: Cna_B; pfam05738 1313172009604 Cna protein B-type domain; Region: Cna_B; pfam05738 1313172009605 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009606 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1313172009607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172009608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009609 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172009610 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172009611 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172009612 active site 1313172009613 PAS domain S-box; Region: sensory_box; TIGR00229 1313172009614 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 1313172009615 putative active site [active] 1313172009616 heme pocket [chemical binding]; other site 1313172009617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172009618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172009619 metal binding site [ion binding]; metal-binding site 1313172009620 active site 1313172009621 I-site; other site 1313172009622 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172009623 threonine dehydratase; Reviewed; Region: PRK09224 1313172009624 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 1313172009625 tetramer interface [polypeptide binding]; other site 1313172009626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172009627 catalytic residue [active] 1313172009628 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1313172009629 putative Ile/Val binding site [chemical binding]; other site 1313172009630 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1313172009631 putative Ile/Val binding site [chemical binding]; other site 1313172009632 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172009633 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172009634 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1313172009635 active site 1313172009636 Zn binding site [ion binding]; other site 1313172009637 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172009638 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1313172009639 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1313172009640 active site 1313172009641 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1313172009642 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1313172009643 active site 1313172009644 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172009645 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1313172009646 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1313172009647 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 1313172009648 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 1313172009649 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172009650 putative substrate translocation pore; other site 1313172009651 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1313172009652 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1313172009653 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172009654 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1313172009655 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172009656 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172009657 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 1313172009658 active site 1313172009659 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1313172009660 Predicted membrane protein [Function unknown]; Region: COG2860 1313172009661 UPF0126 domain; Region: UPF0126; pfam03458 1313172009662 Domain of unknown function (DUF385); Region: DUF385; cl04387 1313172009663 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1313172009664 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 1313172009665 dimer interface [polypeptide binding]; other site 1313172009666 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1313172009667 catalytic triad [active] 1313172009668 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172009669 active site 1313172009670 nucleotide binding site [chemical binding]; other site 1313172009671 HIGH motif; other site 1313172009672 KMSKS motif; other site 1313172009673 Double zinc ribbon; Region: DZR; pfam12773 1313172009674 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1313172009675 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1313172009676 cyclase homology domain; Region: CHD; cd07302 1313172009677 nucleotidyl binding site; other site 1313172009678 metal binding site [ion binding]; metal-binding site 1313172009679 dimer interface [polypeptide binding]; other site 1313172009680 AAA ATPase domain; Region: AAA_16; pfam13191 1313172009681 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1313172009682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1313172009683 Histidine kinase; Region: HisKA_3; pfam07730 1313172009684 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 1313172009685 ATP binding site [chemical binding]; other site 1313172009686 Mg2+ binding site [ion binding]; other site 1313172009687 G-X-G motif; other site 1313172009688 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172009689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172009690 active site 1313172009691 phosphorylation site [posttranslational modification] 1313172009692 intermolecular recognition site; other site 1313172009693 dimerization interface [polypeptide binding]; other site 1313172009694 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 1313172009695 DNA binding residues [nucleotide binding] 1313172009696 dimerization interface [polypeptide binding]; other site 1313172009697 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172009698 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172009699 Walker A/P-loop; other site 1313172009700 ATP binding site [chemical binding]; other site 1313172009701 Q-loop/lid; other site 1313172009702 ABC transporter signature motif; other site 1313172009703 Walker B; other site 1313172009704 D-loop; other site 1313172009705 H-loop/switch region; other site 1313172009706 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1313172009707 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172009708 FtsX-like permease family; Region: FtsX; pfam02687 1313172009709 FtsX-like permease family; Region: FtsX; pfam02687 1313172009710 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1313172009711 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1313172009712 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 1313172009713 putative DNA binding site [nucleotide binding]; other site 1313172009714 catalytic residue [active] 1313172009715 putative H2TH interface [polypeptide binding]; other site 1313172009716 putative catalytic residues [active] 1313172009717 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1313172009718 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1313172009719 nudix motif; other site 1313172009720 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1313172009721 Amidinotransferase; Region: Amidinotransf; pfam02274 1313172009722 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 1313172009723 S-adenosylmethionine binding site [chemical binding]; other site 1313172009724 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172009725 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172009726 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1313172009727 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1313172009728 dimerization interface [polypeptide binding]; other site 1313172009729 ligand binding site [chemical binding]; other site 1313172009730 NADP binding site [chemical binding]; other site 1313172009731 catalytic site [active] 1313172009732 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1313172009733 putative active site [active] 1313172009734 Zn binding site [ion binding]; other site 1313172009735 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172009736 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 1313172009737 DNA binding residues [nucleotide binding] 1313172009738 oxidoreductase, 2OG-Fe(II) oxygenase family protein; Region: PLN02750 1313172009739 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172009740 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172009741 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 1313172009742 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1313172009743 active site 1313172009744 catalytic tetrad [active] 1313172009745 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 1313172009746 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 1313172009747 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1313172009748 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1313172009749 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1313172009750 putative catalytic site [active] 1313172009751 putative metal binding site [ion binding]; other site 1313172009752 putative phosphate binding site [ion binding]; other site 1313172009753 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 1313172009754 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172009755 TM-ABC transporter signature motif; other site 1313172009756 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1313172009757 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 1313172009758 TM-ABC transporter signature motif; other site 1313172009759 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172009760 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1313172009761 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1313172009762 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172009763 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172009764 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1313172009765 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; cd03467 1313172009766 iron-sulfur cluster [ion binding]; other site 1313172009767 [2Fe-2S] cluster binding site [ion binding]; other site 1313172009768 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 1313172009769 active site 1313172009770 FMN binding site [chemical binding]; other site 1313172009771 substrate binding site [chemical binding]; other site 1313172009772 3Fe-4S cluster binding site [ion binding]; other site 1313172009773 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1313172009774 DNA-binding site [nucleotide binding]; DNA binding site 1313172009775 RNA-binding motif; other site 1313172009776 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172009777 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172009778 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 1313172009779 DNA binding residues [nucleotide binding] 1313172009780 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172009781 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172009782 intersubunit interface [polypeptide binding]; other site 1313172009783 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1313172009784 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172009785 ABC-ATPase subunit interface; other site 1313172009786 dimer interface [polypeptide binding]; other site 1313172009787 putative PBP binding regions; other site 1313172009788 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172009789 ABC-ATPase subunit interface; other site 1313172009790 dimer interface [polypeptide binding]; other site 1313172009791 putative PBP binding regions; other site 1313172009792 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1313172009793 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1313172009794 Walker A/P-loop; other site 1313172009795 ATP binding site [chemical binding]; other site 1313172009796 Q-loop/lid; other site 1313172009797 ABC transporter signature motif; other site 1313172009798 Walker B; other site 1313172009799 D-loop; other site 1313172009800 H-loop/switch region; other site 1313172009801 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 1313172009802 putative DNA binding site [nucleotide binding]; other site 1313172009803 putative Zn2+ binding site [ion binding]; other site 1313172009804 SnoaL-like domain; Region: SnoaL_2; pfam12680 1313172009805 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1313172009806 active site 1313172009807 NTP binding site [chemical binding]; other site 1313172009808 metal binding triad [ion binding]; metal-binding site 1313172009809 Protein of unknown function DUF86; Region: DUF86; cl01031 1313172009810 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1313172009811 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1313172009812 active site 1313172009813 AAA ATPase domain; Region: AAA_16; pfam13191 1313172009814 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172009815 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 1313172009816 DNA binding residues [nucleotide binding] 1313172009817 dimerization interface [polypeptide binding]; other site 1313172009818 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172009819 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 1313172009820 dimer interface [polypeptide binding]; other site 1313172009821 conserved gate region; other site 1313172009822 putative PBP binding loops; other site 1313172009823 ABC-ATPase subunit interface; other site 1313172009824 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1313172009825 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 1313172009826 dimer interface [polypeptide binding]; other site 1313172009827 conserved gate region; other site 1313172009828 putative PBP binding loops; other site 1313172009829 ABC-ATPase subunit interface; other site 1313172009830 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1313172009831 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1313172009832 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1313172009833 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172009834 active site 1313172009835 HIGH motif; other site 1313172009836 nucleotide binding site [chemical binding]; other site 1313172009837 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1313172009838 KMSKS motif; other site 1313172009839 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1313172009840 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1313172009841 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1313172009842 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1313172009843 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1313172009844 Walker A/P-loop; other site 1313172009845 ATP binding site [chemical binding]; other site 1313172009846 Q-loop/lid; other site 1313172009847 ABC transporter signature motif; other site 1313172009848 Walker B; other site 1313172009849 D-loop; other site 1313172009850 H-loop/switch region; other site 1313172009851 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1313172009852 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 1313172009853 dimer interface [polypeptide binding]; other site 1313172009854 conserved gate region; other site 1313172009855 ABC-ATPase subunit interface; other site 1313172009856 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1313172009857 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 1313172009858 dimer interface [polypeptide binding]; other site 1313172009859 conserved gate region; other site 1313172009860 ABC-ATPase subunit interface; other site 1313172009861 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1313172009862 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1313172009863 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1313172009864 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172009865 active site 1313172009866 HIGH motif; other site 1313172009867 nucleotide binding site [chemical binding]; other site 1313172009868 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1313172009869 active site 1313172009870 KMSKS motif; other site 1313172009871 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1313172009872 tRNA binding surface [nucleotide binding]; other site 1313172009873 anticodon binding site; other site 1313172009874 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1313172009875 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1313172009876 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1313172009877 metal ion-dependent adhesion site (MIDAS); other site 1313172009878 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172009879 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 1313172009880 Walker A motif; other site 1313172009881 ATP binding site [chemical binding]; other site 1313172009882 Walker B motif; other site 1313172009883 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 1313172009884 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1313172009885 NAD binding site [chemical binding]; other site 1313172009886 catalytic Zn binding site [ion binding]; other site 1313172009887 substrate binding site [chemical binding]; other site 1313172009888 structural Zn binding site [ion binding]; other site 1313172009889 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172009890 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1313172009891 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1313172009892 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172009893 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172009894 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1313172009895 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 1313172009896 catalytic loop [active] 1313172009897 iron binding site [ion binding]; other site 1313172009898 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1313172009899 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172009900 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 1313172009901 active site 1313172009902 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 1313172009903 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1313172009904 NAD binding site [chemical binding]; other site 1313172009905 catalytic Zn binding site [ion binding]; other site 1313172009906 substrate binding site [chemical binding]; other site 1313172009907 structural Zn binding site [ion binding]; other site 1313172009908 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1313172009909 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1313172009910 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1313172009911 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1313172009912 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1313172009913 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1313172009914 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1313172009915 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1313172009916 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 1313172009917 Active Sites [active] 1313172009918 sulfite reductase subunit beta; Provisional; Region: PRK13504 1313172009919 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1313172009920 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1313172009921 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1313172009922 active site 1313172009923 SAM binding site [chemical binding]; other site 1313172009924 homodimer interface [polypeptide binding]; other site 1313172009925 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1313172009926 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1313172009927 MOSC domain; Region: MOSC; pfam03473 1313172009928 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1313172009929 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 1313172009930 metal binding site [ion binding]; metal-binding site 1313172009931 putative dimer interface [polypeptide binding]; other site 1313172009932 putative mycofactocin binding protein MftB; Region: mycofact_MftB; TIGR03967 1313172009933 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 1313172009934 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 1313172009935 FeS/SAM binding site; other site 1313172009936 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1313172009937 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 1313172009938 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172009939 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172009940 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 1313172009941 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172009942 classical (c) SDRs; Region: SDR_c; cd05233 1313172009943 NAD(P) binding site [chemical binding]; other site 1313172009944 active site 1313172009945 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1313172009946 putative dimer interface [polypeptide binding]; other site 1313172009947 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172009948 acyl-CoA synthetase; Validated; Region: PRK07798 1313172009949 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172009950 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 1313172009951 acyl-activating enzyme (AAE) consensus motif; other site 1313172009952 acyl-activating enzyme (AAE) consensus motif; other site 1313172009953 putative active site [active] 1313172009954 putative AMP binding site [chemical binding]; other site 1313172009955 putative CoA binding site [chemical binding]; other site 1313172009956 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1313172009957 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172009958 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1313172009959 putative active site [active] 1313172009960 putative substrate binding site [chemical binding]; other site 1313172009961 ATP binding site [chemical binding]; other site 1313172009962 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1313172009963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172009964 Coenzyme A binding pocket [chemical binding]; other site 1313172009965 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1313172009966 NlpC/P60 family; Region: NLPC_P60; pfam00877 1313172009967 GMP synthase; Reviewed; Region: guaA; PRK00074 1313172009968 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1313172009969 AMP/PPi binding site [chemical binding]; other site 1313172009970 candidate oxyanion hole; other site 1313172009971 catalytic triad [active] 1313172009972 potential glutamine specificity residues [chemical binding]; other site 1313172009973 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 1313172009974 ATP Binding subdomain [chemical binding]; other site 1313172009975 Ligand Binding sites [chemical binding]; other site 1313172009976 Dimerization subdomain; other site 1313172009977 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1313172009978 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1313172009979 NADP binding site [chemical binding]; other site 1313172009980 dimer interface [polypeptide binding]; other site 1313172009981 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172009982 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 1313172009983 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1313172009984 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 1313172009985 active site 1313172009986 tyrosine decarboxylase; Region: PLN02880 1313172009987 Pyridoxal-dependent decarboxylase conserved domain; Region: Pyridoxal_deC; pfam00282 1313172009988 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172009989 catalytic residue [active] 1313172009990 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 1313172009991 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1313172009992 Anp1; Region: Anp1; pfam03452 1313172009993 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1313172009994 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1313172009995 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1313172009996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172009997 NAD(P) binding site [chemical binding]; other site 1313172009998 active site 1313172009999 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 1313172010000 putative active site [active] 1313172010001 putative CoA binding site [chemical binding]; other site 1313172010002 nudix motif; other site 1313172010003 metal binding site [ion binding]; metal-binding site 1313172010004 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1313172010005 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 1313172010006 ring oligomerisation interface [polypeptide binding]; other site 1313172010007 ATP/Mg binding site [chemical binding]; other site 1313172010008 stacking interactions; other site 1313172010009 hinge regions; other site 1313172010010 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 1313172010011 oligomerisation interface [polypeptide binding]; other site 1313172010012 mobile loop; other site 1313172010013 roof hairpin; other site 1313172010014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172010015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172010016 metal binding site [ion binding]; metal-binding site 1313172010017 active site 1313172010018 I-site; other site 1313172010019 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172010020 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172010021 Cytochrome P450; Region: p450; cl12078 1313172010022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1313172010023 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1313172010024 acetyl-CoA synthetase; Provisional; Region: PRK00174 1313172010025 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1313172010026 active site 1313172010027 CoA binding site [chemical binding]; other site 1313172010028 acyl-activating enzyme (AAE) consensus motif; other site 1313172010029 AMP binding site [chemical binding]; other site 1313172010030 acetate binding site [chemical binding]; other site 1313172010031 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010032 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010033 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172010034 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010035 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010036 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010037 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010038 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010039 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010040 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010041 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010042 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010043 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172010044 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010045 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010046 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010047 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010048 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010049 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010050 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010051 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172010052 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010053 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010054 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010055 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172010056 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010057 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010058 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010059 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010060 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 1313172010061 HYR domain; Region: HYR; pfam02494 1313172010062 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1313172010063 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010064 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1313172010065 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010066 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1313172010067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010068 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1313172010069 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1313172010070 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1313172010071 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1313172010072 4Fe-4S binding domain; Region: Fer4; pfam00037 1313172010073 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1313172010074 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1313172010075 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1313172010076 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1313172010077 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1313172010078 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1313172010079 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1313172010080 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172010081 DNA binding residues [nucleotide binding] 1313172010082 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1313172010083 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 1313172010084 putative DNA binding site [nucleotide binding]; other site 1313172010085 putative Zn2+ binding site [ion binding]; other site 1313172010086 Bacterial transcriptional regulator; Region: IclR; pfam01614 1313172010087 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1313172010088 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 1313172010089 B12 binding site [chemical binding]; other site 1313172010090 cobalt ligand [ion binding]; other site 1313172010091 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1313172010092 Virulence factor; Region: Virulence_fact; pfam13769 1313172010093 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1313172010094 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1313172010095 substrate binding pocket [chemical binding]; other site 1313172010096 dimer interface [polypeptide binding]; other site 1313172010097 inhibitor binding site; inhibition site 1313172010098 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 1313172010099 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1313172010100 catalytic loop [active] 1313172010101 iron binding site [ion binding]; other site 1313172010102 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010103 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010104 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010105 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172010106 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010107 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010108 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010109 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010110 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010111 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1313172010112 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1313172010113 DXD motif; other site 1313172010114 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 1313172010115 putative substrate translocation pore; other site 1313172010116 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172010117 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172010118 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 1313172010119 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1313172010120 phosphopeptide binding site; other site 1313172010121 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1313172010122 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1313172010123 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 1313172010124 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172010125 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172010126 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 1313172010127 DNA binding residues [nucleotide binding] 1313172010128 dimerization interface [polypeptide binding]; other site 1313172010129 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 1313172010130 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1313172010131 Dynamin family; Region: Dynamin_N; pfam00350 1313172010132 G1 box; other site 1313172010133 GTP/Mg2+ binding site [chemical binding]; other site 1313172010134 G2 box; other site 1313172010135 Switch I region; other site 1313172010136 G3 box; other site 1313172010137 Switch II region; other site 1313172010138 G4 box; other site 1313172010139 G5 box; other site 1313172010140 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1313172010141 G1 box; other site 1313172010142 GTP/Mg2+ binding site [chemical binding]; other site 1313172010143 G2 box; other site 1313172010144 Switch I region; other site 1313172010145 G3 box; other site 1313172010146 Switch II region; other site 1313172010147 G4 box; other site 1313172010148 rod shape-determining protein MreB; Provisional; Region: PRK13930 1313172010149 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1313172010150 nucleotide binding site [chemical binding]; other site 1313172010151 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1313172010152 SBD interface [polypeptide binding]; other site 1313172010153 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1313172010154 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1313172010155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172010156 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1313172010157 Coenzyme A binding pocket [chemical binding]; other site 1313172010158 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1313172010159 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172010160 NAD(P) binding site [chemical binding]; other site 1313172010161 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172010162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172010163 Walker A/P-loop; other site 1313172010164 ATP binding site [chemical binding]; other site 1313172010165 Q-loop/lid; other site 1313172010166 ABC transporter signature motif; other site 1313172010167 Walker B; other site 1313172010168 D-loop; other site 1313172010169 H-loop/switch region; other site 1313172010170 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1313172010171 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1313172010172 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 1313172010173 dimer interface [polypeptide binding]; other site 1313172010174 conserved gate region; other site 1313172010175 putative PBP binding loops; other site 1313172010176 ABC-ATPase subunit interface; other site 1313172010177 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1313172010178 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1313172010179 Walker A/P-loop; other site 1313172010180 ATP binding site [chemical binding]; other site 1313172010181 Q-loop/lid; other site 1313172010182 ABC transporter signature motif; other site 1313172010183 Walker B; other site 1313172010184 D-loop; other site 1313172010185 H-loop/switch region; other site 1313172010186 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1313172010187 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1313172010188 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 1313172010189 dimer interface [polypeptide binding]; other site 1313172010190 conserved gate region; other site 1313172010191 ABC-ATPase subunit interface; other site 1313172010192 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1313172010193 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 1313172010194 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1313172010195 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 1313172010196 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 1313172010197 active site 1313172010198 Amidohydrolase; Region: Amidohydro_2; pfam04909 1313172010199 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1313172010200 succinic semialdehyde dehydrogenase; Region: PLN02278 1313172010201 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1313172010202 tetramerization interface [polypeptide binding]; other site 1313172010203 NAD(P) binding site [chemical binding]; other site 1313172010204 catalytic residues [active] 1313172010205 PspC domain; Region: PspC; pfam04024 1313172010206 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1313172010207 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1313172010208 putative acyl-acceptor binding pocket; other site 1313172010209 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 1313172010210 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172010211 FMN binding site [chemical binding]; other site 1313172010212 dimer interface [polypeptide binding]; other site 1313172010213 Ion channel; Region: Ion_trans_2; pfam07885 1313172010214 NADH dehydrogenase-like protein; Provisional; Region: PTZ00318 1313172010215 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172010216 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1313172010217 CoA binding domain; Region: CoA_binding; smart00881 1313172010218 CoA-ligase; Region: Ligase_CoA; pfam00549 1313172010219 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1313172010220 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1313172010221 CoA-ligase; Region: Ligase_CoA; pfam00549 1313172010222 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 1313172010223 B12 binding site [chemical binding]; other site 1313172010224 cobalt ligand [ion binding]; other site 1313172010225 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1313172010226 Archaeal ATPase; Region: Arch_ATPase; pfam01637 1313172010227 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1313172010228 Part of AAA domain; Region: AAA_19; pfam13245 1313172010229 Family description; Region: UvrD_C_2; pfam13538 1313172010230 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1313172010231 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1313172010232 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1313172010233 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172010234 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1313172010235 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1313172010236 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 1313172010237 dimerization interface [polypeptide binding]; other site 1313172010238 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 1313172010239 dimer interface [polypeptide binding]; other site 1313172010240 phosphorylation site [posttranslational modification] 1313172010241 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 1313172010242 ATP binding site [chemical binding]; other site 1313172010243 Mg2+ binding site [ion binding]; other site 1313172010244 G-X-G motif; other site 1313172010245 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172010246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172010247 active site 1313172010248 phosphorylation site [posttranslational modification] 1313172010249 intermolecular recognition site; other site 1313172010250 dimerization interface [polypeptide binding]; other site 1313172010251 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 1313172010252 DNA binding site [nucleotide binding] 1313172010253 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1313172010254 Cytochrome P450; Region: p450; cl12078 1313172010255 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172010256 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1313172010257 Protein of unknown function (DUF328); Region: DUF328; cl01143 1313172010258 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1313172010259 DNA methylase; Region: N6_N4_Mtase; pfam01555 1313172010260 hypothetical protein; Provisional; Region: PRK06194 1313172010261 classical (c) SDRs; Region: SDR_c; cd05233 1313172010262 NAD(P) binding site [chemical binding]; other site 1313172010263 active site 1313172010264 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 1313172010265 PAS domain; Region: PAS_9; pfam13426 1313172010266 putative active site [active] 1313172010267 heme pocket [chemical binding]; other site 1313172010268 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172010269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172010270 metal binding site [ion binding]; metal-binding site 1313172010271 active site 1313172010272 I-site; other site 1313172010273 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1313172010274 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1313172010275 PA14 domain; Region: PA14; cl08459 1313172010276 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1313172010277 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1313172010278 active site 1313172010279 catalytic site [active] 1313172010280 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172010281 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 1313172010282 ligand binding site [chemical binding]; other site 1313172010283 flexible hinge region; other site 1313172010284 heme/flavin dehydrogenase, mycofactocin system; Region: actino_HemFlav; TIGR03966 1313172010285 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172010286 phosphate binding site [ion binding]; other site 1313172010287 Creatinine amidohydrolase; Region: Creatininase; cl00618 1313172010288 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 1313172010289 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1313172010290 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1313172010291 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1313172010292 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172010293 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172010294 acyl-activating enzyme (AAE) consensus motif; other site 1313172010295 putative AMP binding site [chemical binding]; other site 1313172010296 putative active site [active] 1313172010297 putative CoA binding site [chemical binding]; other site 1313172010298 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1313172010299 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1313172010300 nucleotide binding site [chemical binding]; other site 1313172010301 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 1313172010302 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172010303 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1313172010304 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172010305 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172010306 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 1313172010307 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1313172010308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172010309 catalytic residue [active] 1313172010310 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1313172010311 ligand binding site [chemical binding]; other site 1313172010312 active site 1313172010313 UGI interface [polypeptide binding]; other site 1313172010314 catalytic site [active] 1313172010315 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1313172010316 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172010317 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1313172010318 OsmC-like protein; Region: OsmC; pfam02566 1313172010319 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1313172010320 TrkA-N domain; Region: TrkA_N; pfam02254 1313172010321 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 1313172010322 putative active site pocket [active] 1313172010323 dimerization interface [polypeptide binding]; other site 1313172010324 putative catalytic residue [active] 1313172010325 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 1313172010326 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1313172010327 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1313172010328 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1313172010329 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1313172010330 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1313172010331 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1313172010332 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 1313172010333 Potassium binding sites [ion binding]; other site 1313172010334 Cesium cation binding sites [ion binding]; other site 1313172010335 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 1313172010336 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172010337 putative substrate translocation pore; other site 1313172010338 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1313172010339 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1313172010340 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 1313172010341 RNA binding surface [nucleotide binding]; other site 1313172010342 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 1313172010343 non-specific DNA binding site [nucleotide binding]; other site 1313172010344 salt bridge; other site 1313172010345 sequence-specific DNA binding site [nucleotide binding]; other site 1313172010346 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1313172010347 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 1313172010348 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 1313172010349 Zn binding site [ion binding]; other site 1313172010350 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 1313172010351 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1313172010352 dinuclear metal binding motif [ion binding]; other site 1313172010353 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1313172010354 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 1313172010355 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 1313172010356 Zn binding site [ion binding]; other site 1313172010357 Right handed beta helix region; Region: Beta_helix; pfam13229 1313172010358 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1313172010359 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 1313172010360 TIGR03032 family protein; Region: TIGR03032 1313172010361 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1313172010362 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1313172010363 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1313172010364 hypothetical protein; Provisional; Region: PRK04194 1313172010365 AIR carboxylase; Region: AIRC; smart01001 1313172010366 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 1313172010367 Ligand Binding Site [chemical binding]; other site 1313172010368 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1313172010369 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1313172010370 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172010371 L-asparaginase II; Region: Asparaginase_II; pfam06089 1313172010372 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1313172010373 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1313172010374 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 1313172010375 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1313172010376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1313172010377 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1313172010378 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 1313172010379 active site 1313172010380 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1313172010381 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1313172010382 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172010383 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 1313172010384 dimer interface [polypeptide binding]; other site 1313172010385 ABC-ATPase subunit interface; other site 1313172010386 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 1313172010387 putative PBP binding loops; other site 1313172010388 ABC-ATPase subunit interface; other site 1313172010389 enoyl-CoA hydratase; Provisional; Region: PRK08290 1313172010390 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 1313172010391 substrate binding site [chemical binding]; other site 1313172010392 oxyanion hole (OAH) forming residues; other site 1313172010393 trimer interface [polypeptide binding]; other site 1313172010394 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1313172010395 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172010396 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 1313172010397 substrate binding site [chemical binding]; other site 1313172010398 oxyanion hole (OAH) forming residues; other site 1313172010399 trimer interface [polypeptide binding]; other site 1313172010400 Clp protease ATP binding subunit; Region: clpC; CHL00095 1313172010401 Clp amino terminal domain; Region: Clp_N; pfam02861 1313172010402 Clp amino terminal domain; Region: Clp_N; pfam02861 1313172010403 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 1313172010404 Walker A motif; other site 1313172010405 ATP binding site [chemical binding]; other site 1313172010406 Walker B motif; other site 1313172010407 arginine finger; other site 1313172010408 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 1313172010409 Walker A motif; other site 1313172010410 ATP binding site [chemical binding]; other site 1313172010411 Walker B motif; other site 1313172010412 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1313172010413 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 1313172010414 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1313172010415 active site 1313172010416 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 1313172010417 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172010418 catalytic residues [active] 1313172010419 Putative zinc-finger; Region: zf-HC2; pfam13490 1313172010420 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1313172010421 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172010422 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 1313172010423 DNA binding residues [nucleotide binding] 1313172010424 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1313172010425 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 1313172010426 Cu(I) binding site [ion binding]; other site 1313172010427 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1313172010428 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1313172010429 Domain of unknown function UPF0086; Region: UPF0086; cl00688 1313172010430 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172010431 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 1313172010432 ligand binding site [chemical binding]; other site 1313172010433 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 1313172010434 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172010435 ligand binding site [chemical binding]; other site 1313172010436 flexible hinge region; other site 1313172010437 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1313172010438 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1313172010439 nucleophile elbow; other site 1313172010440 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1313172010441 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172010442 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172010443 Walker A/P-loop; other site 1313172010444 ATP binding site [chemical binding]; other site 1313172010445 Q-loop/lid; other site 1313172010446 ABC transporter signature motif; other site 1313172010447 Walker B; other site 1313172010448 D-loop; other site 1313172010449 H-loop/switch region; other site 1313172010450 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1313172010451 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 1313172010452 ligand binding site [chemical binding]; other site 1313172010453 DNA repair protein RadA; Provisional; Region: PRK11823 1313172010454 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1313172010455 Walker A motif; other site 1313172010456 ATP binding site [chemical binding]; other site 1313172010457 Walker B motif; other site 1313172010458 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1313172010459 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 1313172010460 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1313172010461 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1313172010462 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1313172010463 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172010464 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172010465 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1313172010466 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1313172010467 Predicted transcriptional regulator [Transcription]; Region: COG2345 1313172010468 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1313172010469 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1313172010470 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 1313172010471 motif II; other site 1313172010472 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1313172010473 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 1313172010474 NAD(P) binding site [chemical binding]; other site 1313172010475 putative acyltransferase; Provisional; Region: PRK05790 1313172010476 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 1313172010477 dimer interface [polypeptide binding]; other site 1313172010478 active site 1313172010479 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172010480 recombination protein RecR; Reviewed; Region: recR; PRK00076 1313172010481 RecR protein; Region: RecR; pfam02132 1313172010482 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 1313172010483 putative active site [active] 1313172010484 putative metal-binding site [ion binding]; other site 1313172010485 tetramer interface [polypeptide binding]; other site 1313172010486 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1313172010487 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 1313172010488 Walker A motif; other site 1313172010489 ATP binding site [chemical binding]; other site 1313172010490 Walker B motif; other site 1313172010491 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1313172010492 CopC domain; Region: CopC; cl01012 1313172010493 Copper resistance protein D; Region: CopD; cl00563 1313172010494 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 1313172010495 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 1313172010496 active site 1313172010497 DNA binding site [nucleotide binding] 1313172010498 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 1313172010499 DNA binding site [nucleotide binding] 1313172010500 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1313172010501 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1313172010502 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1313172010503 RDD family; Region: RDD; pfam06271 1313172010504 RDD family; Region: RDD; pfam06271 1313172010505 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1313172010506 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1313172010507 active site 1313172010508 metal binding site [ion binding]; metal-binding site 1313172010509 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1313172010510 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1313172010511 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1313172010512 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1313172010513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172010514 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1313172010515 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1313172010516 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1313172010517 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1313172010518 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 1313172010519 dimer interface [polypeptide binding]; other site 1313172010520 conserved gate region; other site 1313172010521 putative PBP binding loops; other site 1313172010522 ABC-ATPase subunit interface; other site 1313172010523 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1313172010524 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172010525 Walker A/P-loop; other site 1313172010526 ATP binding site [chemical binding]; other site 1313172010527 Q-loop/lid; other site 1313172010528 ABC transporter signature motif; other site 1313172010529 Walker B; other site 1313172010530 D-loop; other site 1313172010531 H-loop/switch region; other site 1313172010532 TOBE domain; Region: TOBE; pfam03459 1313172010533 RmuC family; Region: RmuC; pfam02646 1313172010534 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1313172010535 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 1313172010536 generic binding surface II; other site 1313172010537 generic binding surface I; other site 1313172010538 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 1313172010539 Homeodomain-like domain; Region: HTH_23; pfam13384 1313172010540 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1313172010541 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1313172010542 substrate binding pocket [chemical binding]; other site 1313172010543 chain length determination region; other site 1313172010544 substrate-Mg2+ binding site; other site 1313172010545 catalytic residues [active] 1313172010546 aspartate-rich region 1; other site 1313172010547 active site lid residues [active] 1313172010548 aspartate-rich region 2; other site 1313172010549 phytoene desaturase; Region: crtI_fam; TIGR02734 1313172010550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172010551 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1313172010552 active site lid residues [active] 1313172010553 substrate binding pocket [chemical binding]; other site 1313172010554 catalytic residues [active] 1313172010555 substrate-Mg2+ binding site; other site 1313172010556 aspartate-rich region 1; other site 1313172010557 aspartate-rich region 2; other site 1313172010558 Protein of unknown function (DUF422); Region: DUF422; cl00991 1313172010559 phytoene desaturase; Region: crtI_fam; TIGR02734 1313172010560 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1313172010561 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1313172010562 active site 1313172010563 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 1313172010564 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172010565 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 1313172010566 active site 1313172010567 oxidoreductase; Region: PLN02485 1313172010568 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172010569 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172010570 GCC2 and GCC3; Region: GCC2_GCC3; pfam07699 1313172010571 GCC2 and GCC3; Region: GCC2_GCC3; pfam07699 1313172010572 GCC2 and GCC3; Region: GCC2_GCC3; pfam07699 1313172010573 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172010574 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172010575 intersubunit interface [polypeptide binding]; other site 1313172010576 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1313172010577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1313172010578 FMN binding site [chemical binding]; other site 1313172010579 Nitroreductase family; Region: Nitroreductase; pfam00881 1313172010580 dimer interface [polypeptide binding]; other site 1313172010581 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172010582 Sulfatase; Region: Sulfatase; pfam00884 1313172010583 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1313172010584 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1313172010585 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 1313172010586 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 1313172010587 anti sigma factor interaction site; other site 1313172010588 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1313172010589 regulatory phosphorylation site [posttranslational modification]; other site 1313172010590 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 1313172010591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172010592 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1313172010593 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 1313172010594 DNA binding residues [nucleotide binding] 1313172010595 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 1313172010596 Predicted membrane protein [Function unknown]; Region: COG4325 1313172010597 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1313172010598 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1313172010599 PLD-like domain; Region: PLDc_2; pfam13091 1313172010600 putative active site [active] 1313172010601 catalytic site [active] 1313172010602 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1313172010603 PLD-like domain; Region: PLDc_2; pfam13091 1313172010604 putative active site [active] 1313172010605 catalytic site [active] 1313172010606 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1313172010607 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 1313172010608 putative Zn2+ binding site [ion binding]; other site 1313172010609 putative DNA binding site [nucleotide binding]; other site 1313172010610 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172010611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172010612 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 1313172010613 DNA binding residues [nucleotide binding] 1313172010614 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 1313172010615 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1313172010616 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 1313172010617 Ligand Binding Site [chemical binding]; other site 1313172010618 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 1313172010619 Scramblase; Region: Scramblase; pfam03803 1313172010620 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172010621 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172010622 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172010623 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172010624 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1313172010625 Peptidase family M23; Region: Peptidase_M23; pfam01551 1313172010626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172010627 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1313172010628 NAD(P) binding site [chemical binding]; other site 1313172010629 active site 1313172010630 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172010631 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1313172010632 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1313172010633 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172010634 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1313172010635 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1313172010636 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 1313172010637 inhibitor-cofactor binding pocket; inhibition site 1313172010638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172010639 catalytic residue [active] 1313172010640 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1313172010641 dimer interface [polypeptide binding]; other site 1313172010642 active site 1313172010643 Schiff base residues; other site 1313172010644 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1313172010645 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 1313172010646 active site 1313172010647 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1313172010648 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1313172010649 domain interfaces; other site 1313172010650 active site 1313172010651 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1313172010652 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1313172010653 tRNA; other site 1313172010654 putative tRNA binding site [nucleotide binding]; other site 1313172010655 putative NADP binding site [chemical binding]; other site 1313172010656 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1313172010657 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1313172010658 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1313172010659 CoA binding domain; Region: CoA_binding; cl17356 1313172010660 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 1313172010661 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1313172010662 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1313172010663 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1313172010664 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1313172010665 putative ADP-binding pocket [chemical binding]; other site 1313172010666 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1313172010667 MoaE interaction surface [polypeptide binding]; other site 1313172010668 MoeB interaction surface [polypeptide binding]; other site 1313172010669 thiocarboxylated glycine; other site 1313172010670 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 1313172010671 active site 1313172010672 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1313172010673 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 1313172010674 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1313172010675 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1313172010676 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1313172010677 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 1313172010678 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010679 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1313172010680 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 1313172010681 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1313172010682 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 1313172010683 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010684 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_cladeD; cd03379 1313172010685 active site clefts [active] 1313172010686 zinc binding site [ion binding]; other site 1313172010687 dimer interface [polypeptide binding]; other site 1313172010688 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 1313172010689 dimerization interface [polypeptide binding]; other site 1313172010690 putative Zn2+ binding site [ion binding]; other site 1313172010691 putative DNA binding site [nucleotide binding]; other site 1313172010692 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1313172010693 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1313172010694 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 1313172010695 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 1313172010696 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010697 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 1313172010698 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1313172010699 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 1313172010700 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1313172010701 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1313172010702 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1313172010703 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 1313172010704 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1313172010705 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1313172010706 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1313172010707 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 1313172010708 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 1313172010709 B12 binding site [chemical binding]; other site 1313172010710 cobalt ligand [ion binding]; other site 1313172010711 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1313172010712 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 1313172010713 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1313172010714 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172010715 Nucleotide binding site [chemical binding]; other site 1313172010716 DTAP/Switch II; other site 1313172010717 Switch I; other site 1313172010718 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1313172010719 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1313172010720 DTAP/Switch II; other site 1313172010721 Switch I; other site 1313172010722 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1313172010723 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1313172010724 active site 1313172010725 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1313172010726 Transcription factor WhiB; Region: Whib; pfam02467 1313172010727 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1313172010728 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1313172010729 G1 box; other site 1313172010730 putative GEF interaction site [polypeptide binding]; other site 1313172010731 GTP/Mg2+ binding site [chemical binding]; other site 1313172010732 Switch I region; other site 1313172010733 G2 box; other site 1313172010734 G3 box; other site 1313172010735 Switch II region; other site 1313172010736 G4 box; other site 1313172010737 G5 box; other site 1313172010738 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1313172010739 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 1313172010740 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1313172010741 selenocysteine synthase; Provisional; Region: PRK04311 1313172010742 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 1313172010743 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1313172010744 trimer interface [polypeptide binding]; other site 1313172010745 active site 1313172010746 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 1313172010747 putative active site [active] 1313172010748 putative CoA binding site [chemical binding]; other site 1313172010749 nudix motif; other site 1313172010750 metal binding site [ion binding]; metal-binding site 1313172010751 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1313172010752 CoenzymeA binding site [chemical binding]; other site 1313172010753 subunit interaction site [polypeptide binding]; other site 1313172010754 PHB binding site; other site 1313172010755 NAD synthetase; Provisional; Region: PRK13981 1313172010756 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1313172010757 multimer interface [polypeptide binding]; other site 1313172010758 active site 1313172010759 catalytic triad [active] 1313172010760 protein interface 1 [polypeptide binding]; other site 1313172010761 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 1313172010762 homodimer interface [polypeptide binding]; other site 1313172010763 NAD binding pocket [chemical binding]; other site 1313172010764 ATP binding pocket [chemical binding]; other site 1313172010765 Mg binding site [ion binding]; other site 1313172010766 active-site loop [active] 1313172010767 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1313172010768 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1313172010769 Walker A/P-loop; other site 1313172010770 ATP binding site [chemical binding]; other site 1313172010771 Q-loop/lid; other site 1313172010772 ABC transporter signature motif; other site 1313172010773 Walker B; other site 1313172010774 D-loop; other site 1313172010775 H-loop/switch region; other site 1313172010776 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1313172010777 FtsX-like permease family; Region: FtsX; pfam02687 1313172010778 Penicillin amidase; Region: Penicil_amidase; pfam01804 1313172010779 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1313172010780 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1313172010781 active site 1313172010782 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1313172010783 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1313172010784 glutamine synthetase; Region: PLN02284 1313172010785 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1313172010786 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1313172010787 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1313172010788 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1313172010789 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1313172010790 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1313172010791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1313172010792 active site 1313172010793 phosphorylation site [posttranslational modification] 1313172010794 intermolecular recognition site; other site 1313172010795 dimerization interface [polypeptide binding]; other site 1313172010796 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 1313172010797 DNA binding site [nucleotide binding] 1313172010798 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1313172010799 active site 1313172010800 catalytic triad [active] 1313172010801 oxyanion hole [active] 1313172010802 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1313172010803 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 1313172010804 active site 1313172010805 putative substrate binding pocket [chemical binding]; other site 1313172010806 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 1313172010807 homotrimer interaction site [polypeptide binding]; other site 1313172010808 putative active site [active] 1313172010809 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1313172010810 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1313172010811 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1313172010812 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1313172010813 Fasciclin domain; Region: Fasciclin; cl02663 1313172010814 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1313172010815 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1313172010816 ligand binding site [chemical binding]; other site 1313172010817 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1313172010818 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1313172010819 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 1313172010820 dimerization interface [polypeptide binding]; other site 1313172010821 putative DNA binding site [nucleotide binding]; other site 1313172010822 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 1313172010823 putative Zn2+ binding site [ion binding]; other site 1313172010824 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1313172010825 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 1313172010826 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 1313172010827 Walker A motif; other site 1313172010828 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1313172010829 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1313172010830 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 1313172010831 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172010832 catalytic residues [active] 1313172010833 Transcription factor WhiB; Region: Whib; pfam02467 1313172010834 Transcription factor WhiB; Region: Whib; pfam02467 1313172010835 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 1313172010836 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 1313172010837 active site 1313172010838 CopC domain; Region: CopC; cl01012 1313172010839 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1313172010840 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1313172010841 NAD(P) binding site [chemical binding]; other site 1313172010842 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1313172010843 catalytic site [active] 1313172010844 putative active site [active] 1313172010845 putative substrate binding site [chemical binding]; other site 1313172010846 dimer interface [polypeptide binding]; other site 1313172010847 Protein of unknown function (DUF867); Region: DUF867; cl01713 1313172010848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1313172010849 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 1313172010850 dimerization interface [polypeptide binding]; other site 1313172010851 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 1313172010852 dimer interface [polypeptide binding]; other site 1313172010853 phosphorylation site [posttranslational modification] 1313172010854 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 1313172010855 ATP binding site [chemical binding]; other site 1313172010856 Mg2+ binding site [ion binding]; other site 1313172010857 G-X-G motif; other site 1313172010858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172010859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172010860 active site 1313172010861 phosphorylation site [posttranslational modification] 1313172010862 intermolecular recognition site; other site 1313172010863 dimerization interface [polypeptide binding]; other site 1313172010864 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 1313172010865 DNA binding site [nucleotide binding] 1313172010866 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1313172010867 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1313172010868 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1313172010869 seryl-tRNA synthetase; Provisional; Region: PRK05431 1313172010870 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1313172010871 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1313172010872 dimer interface [polypeptide binding]; other site 1313172010873 motif 1; other site 1313172010874 active site 1313172010875 motif 2; other site 1313172010876 motif 3; other site 1313172010877 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1313172010878 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1313172010879 Subunit I/III interface [polypeptide binding]; other site 1313172010880 Subunit III/IV interface [polypeptide binding]; other site 1313172010881 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1313172010882 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1313172010883 D-pathway; other site 1313172010884 Putative ubiquinol binding site [chemical binding]; other site 1313172010885 Low-spin heme (heme b) binding site [chemical binding]; other site 1313172010886 Putative water exit pathway; other site 1313172010887 Binuclear center (heme o3/CuB) [ion binding]; other site 1313172010888 K-pathway; other site 1313172010889 Putative proton exit pathway; other site 1313172010890 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1313172010891 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1313172010892 cytochrome c-550; Provisional; Region: psbV; cl17239 1313172010893 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1313172010894 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1313172010895 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1313172010896 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1313172010897 UbiA prenyltransferase family; Region: UbiA; pfam01040 1313172010898 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1313172010899 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172010900 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172010901 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172010902 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172010903 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 1313172010904 substrate binding site [chemical binding]; other site 1313172010905 oxyanion hole (OAH) forming residues; other site 1313172010906 trimer interface [polypeptide binding]; other site 1313172010907 beta-carotene hydroxylase; Region: PLN02601 1313172010908 EDD domain protein, DegV family; Region: DegV; TIGR00762 1313172010909 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1313172010910 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 1313172010911 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 1313172010912 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1313172010913 substrate binding site [chemical binding]; other site 1313172010914 oxyanion hole (OAH) forming residues; other site 1313172010915 trimer interface [polypeptide binding]; other site 1313172010916 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1313172010917 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1313172010918 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1313172010919 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 1313172010920 nucleoside/Zn binding site; other site 1313172010921 dimer interface [polypeptide binding]; other site 1313172010922 catalytic motif [active] 1313172010923 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1313172010924 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1313172010925 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1313172010926 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1313172010927 active site 1313172010928 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1313172010929 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1313172010930 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1313172010931 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1313172010932 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1313172010933 active site 1313172010934 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1313172010935 catalytic triad [active] 1313172010936 dimer interface [polypeptide binding]; other site 1313172010937 adenylosuccinate lyase; Provisional; Region: PRK07492 1313172010938 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1313172010939 tetramer interface [polypeptide binding]; other site 1313172010940 active site 1313172010941 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1313172010942 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1313172010943 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 1313172010944 GDP-binding site [chemical binding]; other site 1313172010945 ACT binding site; other site 1313172010946 IMP binding site; other site 1313172010947 Sulfatase; Region: Sulfatase; cl17466 1313172010948 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1313172010949 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1313172010950 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; cl10029 1313172010951 histidinol dehydrogenase; Region: hisD; TIGR00069 1313172010952 NAD binding site [chemical binding]; other site 1313172010953 dimerization interface [polypeptide binding]; other site 1313172010954 product binding site; other site 1313172010955 substrate binding site [chemical binding]; other site 1313172010956 zinc binding site [ion binding]; other site 1313172010957 catalytic residues [active] 1313172010958 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1313172010959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172010960 active site 1313172010961 phosphorylation site [posttranslational modification] 1313172010962 intermolecular recognition site; other site 1313172010963 dimerization interface [polypeptide binding]; other site 1313172010964 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 1313172010965 DNA binding site [nucleotide binding] 1313172010966 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 1313172010967 dimerization interface [polypeptide binding]; other site 1313172010968 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 1313172010969 dimer interface [polypeptide binding]; other site 1313172010970 phosphorylation site [posttranslational modification] 1313172010971 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 1313172010972 tetramer interface [polypeptide binding]; other site 1313172010973 TPP-binding site [chemical binding]; other site 1313172010974 heterodimer interface [polypeptide binding]; other site 1313172010975 phosphorylation loop region [posttranslational modification] 1313172010976 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1313172010977 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1313172010978 PYR/PP interface [polypeptide binding]; other site 1313172010979 dimer interface [polypeptide binding]; other site 1313172010980 TPP binding site [chemical binding]; other site 1313172010981 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1313172010982 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1313172010983 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 1313172010984 Walker A motif; other site 1313172010985 ATP binding site [chemical binding]; other site 1313172010986 Walker B motif; other site 1313172010987 arginine finger; other site 1313172010988 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 1313172010989 Walker A motif; other site 1313172010990 ATP binding site [chemical binding]; other site 1313172010991 Walker B motif; other site 1313172010992 arginine finger; other site 1313172010993 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1313172010994 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172010995 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010996 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010997 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172010998 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172010999 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172011000 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1313172011001 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172011002 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172011003 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1313172011004 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1313172011005 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 1313172011006 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1313172011007 SNF2 Helicase protein; Region: DUF3670; pfam12419 1313172011008 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 1313172011009 ATP binding site [chemical binding]; other site 1313172011010 putative Mg++ binding site [ion binding]; other site 1313172011011 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 1313172011012 nucleotide binding region [chemical binding]; other site 1313172011013 ATP-binding site [chemical binding]; other site 1313172011014 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1313172011015 SWIM zinc finger; Region: SWIM; pfam04434 1313172011016 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 1313172011017 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1313172011018 active site 1313172011019 motif I; other site 1313172011020 motif II; other site 1313172011021 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 1313172011022 MoxR-like ATPases [General function prediction only]; Region: COG0714 1313172011023 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 1313172011024 ATP binding site [chemical binding]; other site 1313172011025 Walker A motif; other site 1313172011026 Walker B motif; other site 1313172011027 arginine finger; other site 1313172011028 Protein of unknown function DUF58; Region: DUF58; pfam01882 1313172011029 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1313172011030 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172011031 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1313172011032 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1313172011033 putative active site [active] 1313172011034 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1313172011035 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1313172011036 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1313172011037 DNA binding residues [nucleotide binding] 1313172011038 putative dimer interface [polypeptide binding]; other site 1313172011039 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 1313172011040 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 1313172011041 HSP70 interaction site [polypeptide binding]; other site 1313172011042 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1313172011043 Zn binding sites [ion binding]; other site 1313172011044 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1313172011045 dimer interface [polypeptide binding]; other site 1313172011046 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1313172011047 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 1313172011048 dimer interface [polypeptide binding]; other site 1313172011049 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1313172011050 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1313172011051 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1313172011052 nucleotide binding site [chemical binding]; other site 1313172011053 NEF interaction site [polypeptide binding]; other site 1313172011054 SBD interface [polypeptide binding]; other site 1313172011055 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 1313172011056 active site 1313172011057 catalytic motif [active] 1313172011058 Zn binding site [ion binding]; other site 1313172011059 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1313172011060 phosphopeptide binding site; other site 1313172011061 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 1313172011062 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1313172011063 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1313172011064 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1313172011065 4Fe-4S binding domain; Region: Fer4_2; pfam12797 1313172011066 Cysteine-rich domain; Region: CCG; pfam02754 1313172011067 Cysteine-rich domain; Region: CCG; pfam02754 1313172011068 probable F420-dependent oxidoreductase, Rv3093c family; Region: F420_Rv3093c; TIGR03841 1313172011069 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1313172011070 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172011071 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011072 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172011073 acyl-activating enzyme (AAE) consensus motif; other site 1313172011074 acyl-activating enzyme (AAE) consensus motif; other site 1313172011075 putative AMP binding site [chemical binding]; other site 1313172011076 putative active site [active] 1313172011077 putative CoA binding site [chemical binding]; other site 1313172011078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011080 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011081 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011082 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172011083 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172011084 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011085 acyl-activating enzyme (AAE) consensus motif; other site 1313172011086 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172011087 putative AMP binding site [chemical binding]; other site 1313172011088 putative active site [active] 1313172011089 acyl-activating enzyme (AAE) consensus motif; other site 1313172011090 putative CoA binding site [chemical binding]; other site 1313172011091 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1313172011092 Isochorismatase family; Region: Isochorismatase; pfam00857 1313172011093 catalytic triad [active] 1313172011094 conserved cis-peptide bond; other site 1313172011095 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1313172011096 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1313172011097 active site 1313172011098 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1313172011099 trimer interface [polypeptide binding]; other site 1313172011100 active site 1313172011101 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1313172011102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172011103 Coenzyme A binding pocket [chemical binding]; other site 1313172011104 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1313172011105 Phage Tail Collar Domain; Region: Collar; pfam07484 1313172011106 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1313172011107 Phage Tail Collar Domain; Region: Collar; pfam07484 1313172011108 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1313172011109 Phage Tail Collar Domain; Region: Collar; pfam07484 1313172011110 Domain of unknown function DUF11; Region: DUF11; pfam01345 1313172011111 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1313172011112 Ca2+ binding site [ion binding]; other site 1313172011113 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1313172011114 Ca2+ binding site [ion binding]; other site 1313172011115 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 1313172011116 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1313172011117 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011118 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 1313172011119 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1313172011120 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1313172011121 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1313172011122 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1313172011123 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1313172011124 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1313172011125 active site 1313172011126 catalytic residues [active] 1313172011127 metal binding site [ion binding]; metal-binding site 1313172011128 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1313172011129 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1313172011130 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 1313172011131 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1313172011132 putative active site [active] 1313172011133 putative catalytic site [active] 1313172011134 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1313172011135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172011136 DNA-binding site [nucleotide binding]; DNA binding site 1313172011137 FCD domain; Region: FCD; pfam07729 1313172011138 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1313172011139 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 1313172011140 dimer interface [polypeptide binding]; other site 1313172011141 conserved gate region; other site 1313172011142 ABC-ATPase subunit interface; other site 1313172011143 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1313172011144 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1313172011145 Walker A/P-loop; other site 1313172011146 ATP binding site [chemical binding]; other site 1313172011147 Q-loop/lid; other site 1313172011148 ABC transporter signature motif; other site 1313172011149 Walker B; other site 1313172011150 D-loop; other site 1313172011151 H-loop/switch region; other site 1313172011152 Isochorismatase family; Region: Isochorismatase; pfam00857 1313172011153 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1313172011154 catalytic triad [active] 1313172011155 conserved cis-peptide bond; other site 1313172011156 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1313172011157 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 1313172011158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172011159 homodimer interface [polypeptide binding]; other site 1313172011160 catalytic residue [active] 1313172011161 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172011162 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1313172011163 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1313172011164 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1313172011165 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1313172011166 putative active site [active] 1313172011167 putative dimer interface [polypeptide binding]; other site 1313172011168 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1313172011169 hydroperoxidase II; Provisional; Region: katE; PRK11249 1313172011170 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1313172011171 heme binding pocket [chemical binding]; other site 1313172011172 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1313172011173 domain interactions; other site 1313172011174 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1313172011175 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1313172011176 photolyase PhrII; Region: phr2; TIGR00591 1313172011177 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172011178 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 1313172011179 active site 1313172011180 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172011181 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 1313172011182 [2Fe-2S] cluster binding site [ion binding]; other site 1313172011183 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 1313172011184 putative alpha subunit interface [polypeptide binding]; other site 1313172011185 putative active site [active] 1313172011186 putative substrate binding site [chemical binding]; other site 1313172011187 Fe binding site [ion binding]; other site 1313172011188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011190 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1313172011191 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1313172011192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1313172011193 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 1313172011194 active site residue [active] 1313172011195 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1313172011196 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1313172011197 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1313172011198 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172011199 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 1313172011200 [2Fe-2S] cluster binding site [ion binding]; other site 1313172011201 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172011202 hydrophobic ligand binding site; other site 1313172011203 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1313172011204 NMT1/THI5 like; Region: NMT1; pfam09084 1313172011205 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1313172011206 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 1313172011207 dimer interface [polypeptide binding]; other site 1313172011208 conserved gate region; other site 1313172011209 putative PBP binding loops; other site 1313172011210 ABC-ATPase subunit interface; other site 1313172011211 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1313172011212 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1313172011213 Walker A/P-loop; other site 1313172011214 ATP binding site [chemical binding]; other site 1313172011215 Q-loop/lid; other site 1313172011216 ABC transporter signature motif; other site 1313172011217 Walker B; other site 1313172011218 D-loop; other site 1313172011219 H-loop/switch region; other site 1313172011220 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1313172011221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172011222 DNA-binding site [nucleotide binding]; DNA binding site 1313172011223 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1313172011224 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1313172011225 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011226 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011227 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1313172011228 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011229 acyl-activating enzyme (AAE) consensus motif; other site 1313172011230 AMP binding site [chemical binding]; other site 1313172011231 active site 1313172011232 CoA binding site [chemical binding]; other site 1313172011233 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1313172011234 Lumazine binding domain; Region: Lum_binding; pfam00677 1313172011235 Lumazine binding domain; Region: Lum_binding; pfam00677 1313172011236 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1313172011237 classical (c) SDRs; Region: SDR_c; cd05233 1313172011238 NAD(P) binding site [chemical binding]; other site 1313172011239 active site 1313172011240 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1313172011241 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172011242 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 1313172011243 putative NAD(P) binding site [chemical binding]; other site 1313172011244 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1313172011245 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1313172011246 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1313172011247 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1313172011248 FAD binding pocket [chemical binding]; other site 1313172011249 FAD binding motif [chemical binding]; other site 1313172011250 phosphate binding motif [ion binding]; other site 1313172011251 NAD binding pocket [chemical binding]; other site 1313172011252 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1313172011253 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172011254 intersubunit interface [polypeptide binding]; other site 1313172011255 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1313172011256 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1313172011257 phosphate binding site [ion binding]; other site 1313172011258 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172011259 Cytochrome P450; Region: p450; cl12078 1313172011260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011262 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1313172011263 FMN binding site [chemical binding]; other site 1313172011264 dimer interface [polypeptide binding]; other site 1313172011265 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172011266 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 1313172011267 [2Fe-2S] cluster binding site [ion binding]; other site 1313172011268 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172011269 hydrophobic ligand binding site; other site 1313172011270 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1313172011271 AAA ATPase domain; Region: AAA_16; pfam13191 1313172011272 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 1313172011273 DNA binding residues [nucleotide binding] 1313172011274 dimerization interface [polypeptide binding]; other site 1313172011275 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1313172011276 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1313172011277 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1313172011278 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1313172011279 nucleotide binding site [chemical binding]; other site 1313172011280 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1313172011281 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1313172011282 putative active site; other site 1313172011283 catalytic residue [active] 1313172011284 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1313172011285 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1313172011286 NAD binding site [chemical binding]; other site 1313172011287 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1313172011288 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; cl17257 1313172011289 DNA binding residues [nucleotide binding] 1313172011290 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1313172011291 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1313172011292 L-ribulose-5-phosphate 4-epimerase; Validated; Region: PRK06557 1313172011293 intersubunit interface [polypeptide binding]; other site 1313172011294 active site 1313172011295 Zn2+ binding site [ion binding]; other site 1313172011296 Uncharacterized conserved protein [Function unknown]; Region: COG3347 1313172011297 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1313172011298 ribulokinase; Provisional; Region: PRK04123 1313172011299 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1313172011300 N- and C-terminal domain interface [polypeptide binding]; other site 1313172011301 active site 1313172011302 MgATP binding site [chemical binding]; other site 1313172011303 catalytic site [active] 1313172011304 metal binding site [ion binding]; metal-binding site 1313172011305 carbohydrate binding site [chemical binding]; other site 1313172011306 homodimer interface [polypeptide binding]; other site 1313172011307 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172011308 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 1313172011309 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172011310 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 1313172011311 TM-ABC transporter signature motif; other site 1313172011312 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172011313 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 1313172011314 TM-ABC transporter signature motif; other site 1313172011315 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1313172011316 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1313172011317 Walker A/P-loop; other site 1313172011318 ATP binding site [chemical binding]; other site 1313172011319 Q-loop/lid; other site 1313172011320 ABC transporter signature motif; other site 1313172011321 Walker B; other site 1313172011322 D-loop; other site 1313172011323 H-loop/switch region; other site 1313172011324 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1313172011325 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1313172011326 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 1313172011327 catalytic residues [active] 1313172011328 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1313172011329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011331 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1313172011332 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1313172011333 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1313172011334 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172011335 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172011336 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 1313172011337 DNA binding residues [nucleotide binding] 1313172011338 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1313172011339 Fasciclin domain; Region: Fasciclin; pfam02469 1313172011340 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1313172011341 Fasciclin domain; Region: Fasciclin; pfam02469 1313172011342 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1313172011343 Fasciclin domain; Region: Fasciclin; pfam02469 1313172011344 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 1313172011345 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1313172011346 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 1313172011347 substrate binding site [chemical binding]; other site 1313172011348 ATP binding site [chemical binding]; other site 1313172011349 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1313172011350 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1313172011351 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1313172011352 NAD binding site [chemical binding]; other site 1313172011353 catalytic residues [active] 1313172011354 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 1313172011355 active site residue [active] 1313172011356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1313172011357 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 1313172011358 active site residue [active] 1313172011359 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 1313172011360 active site residue [active] 1313172011361 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 1313172011362 active site residue [active] 1313172011363 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 1313172011364 active site residue [active] 1313172011365 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1313172011366 Protein of unknown function (DUF461); Region: DUF461; cl01071 1313172011367 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1313172011368 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1313172011369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172011370 DNA-binding site [nucleotide binding]; DNA binding site 1313172011371 UTRA domain; Region: UTRA; pfam07702 1313172011372 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1313172011373 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 1313172011374 dimer interface [polypeptide binding]; other site 1313172011375 conserved gate region; other site 1313172011376 ABC-ATPase subunit interface; other site 1313172011377 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1313172011378 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 1313172011379 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1313172011380 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1313172011381 Walker A/P-loop; other site 1313172011382 ATP binding site [chemical binding]; other site 1313172011383 Q-loop/lid; other site 1313172011384 ABC transporter signature motif; other site 1313172011385 Walker B; other site 1313172011386 D-loop; other site 1313172011387 H-loop/switch region; other site 1313172011388 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1313172011389 PBP superfamily domain; Region: PBP_like; cl17867 1313172011390 methionine aminopeptidase; Provisional; Region: PRK12318 1313172011391 SEC-C motif; Region: SEC-C; pfam02810 1313172011392 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 1313172011393 active site 1313172011394 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1313172011395 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1313172011396 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1313172011397 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1313172011398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011400 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1313172011401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172011402 NAD(P) binding site [chemical binding]; other site 1313172011403 active site 1313172011404 DinB superfamily; Region: DinB_2; pfam12867 1313172011405 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172011406 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172011407 active site 1313172011408 probable F420-dependent oxidoreductase, MSMEG_3544 family; Region: F420_MSMEG_3544; TIGR03854 1313172011409 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172011410 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1313172011411 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1313172011412 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 1313172011413 molybdopterin cofactor binding site; other site 1313172011414 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1313172011415 molybdopterin cofactor binding site; other site 1313172011416 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172011417 Cytochrome P450; Region: p450; cl12078 1313172011418 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172011419 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 1313172011420 PAS domain; Region: PAS_9; pfam13426 1313172011421 putative active site [active] 1313172011422 heme pocket [chemical binding]; other site 1313172011423 GAF domain; Region: GAF; pfam01590 1313172011424 GAF domain; Region: GAF_2; pfam13185 1313172011425 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1313172011426 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1313172011427 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1313172011428 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172011429 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172011430 active site 1313172011431 metal binding site [ion binding]; metal-binding site 1313172011432 Nuclease-related domain; Region: NERD; pfam08378 1313172011433 Family description; Region: UvrD_C_2; pfam13538 1313172011434 Protein of unknown function DUF91; Region: DUF91; cl00709 1313172011435 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1313172011436 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172011437 ABC transporter signature motif; other site 1313172011438 Walker B; other site 1313172011439 D-loop; other site 1313172011440 H-loop/switch region; other site 1313172011441 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1313172011442 ATP-binding site [chemical binding]; other site 1313172011443 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 1313172011444 putative homodimer interface [polypeptide binding]; other site 1313172011445 putative active site [active] 1313172011446 catalytic site [active] 1313172011447 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1313172011448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172011449 Walker A/P-loop; other site 1313172011450 ATP binding site [chemical binding]; other site 1313172011451 Q-loop/lid; other site 1313172011452 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1313172011453 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172011454 ABC transporter signature motif; other site 1313172011455 Walker B; other site 1313172011456 D-loop; other site 1313172011457 H-loop/switch region; other site 1313172011458 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1313172011459 active site 1313172011460 metal binding site [ion binding]; metal-binding site 1313172011461 DNA binding site [nucleotide binding] 1313172011462 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1313172011463 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1313172011464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2380 1313172011465 Nuclease-related domain; Region: NERD; pfam08378 1313172011466 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1313172011467 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1313172011468 active site 1313172011469 ATP binding site [chemical binding]; other site 1313172011470 substrate binding site [chemical binding]; other site 1313172011471 activation loop (A-loop); other site 1313172011472 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1313172011473 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1313172011474 active site 1313172011475 ATP binding site [chemical binding]; other site 1313172011476 substrate binding site [chemical binding]; other site 1313172011477 activation loop (A-loop); other site 1313172011478 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1313172011479 PglZ domain; Region: PglZ; pfam08665 1313172011480 LabA_like proteins; Region: LabA_like; cd06167 1313172011481 putative metal binding site [ion binding]; other site 1313172011482 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1313172011483 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 1313172011484 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1313172011485 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1313172011486 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 1313172011487 ATP binding site [chemical binding]; other site 1313172011488 putative Mg++ binding site [ion binding]; other site 1313172011489 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 1313172011490 nucleotide binding region [chemical binding]; other site 1313172011491 ATP-binding site [chemical binding]; other site 1313172011492 Part of AAA domain; Region: AAA_19; pfam13245 1313172011493 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1313172011494 AAA domain; Region: AAA_12; pfam13087 1313172011495 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1313172011496 putative active site [active] 1313172011497 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 1313172011498 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 1313172011499 ATP binding site [chemical binding]; other site 1313172011500 putative Mg++ binding site [ion binding]; other site 1313172011501 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1313172011502 nucleotide binding region [chemical binding]; other site 1313172011503 ATP-binding site [chemical binding]; other site 1313172011504 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1313172011505 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1313172011506 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 1313172011507 S-adenosylmethionine binding site [chemical binding]; other site 1313172011508 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172011509 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 1313172011510 active site 1313172011511 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1313172011512 active site 1313172011513 metal binding site [ion binding]; metal-binding site 1313172011514 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 1313172011515 binding surface 1313172011516 TPR motif; other site 1313172011517 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1313172011518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1313172011519 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 1313172011520 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172011521 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1313172011522 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1313172011523 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 1313172011524 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 1313172011525 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1313172011526 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 1313172011527 dimer interface [polypeptide binding]; other site 1313172011528 conserved gate region; other site 1313172011529 putative PBP binding loops; other site 1313172011530 ABC-ATPase subunit interface; other site 1313172011531 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 1313172011532 dimer interface [polypeptide binding]; other site 1313172011533 conserved gate region; other site 1313172011534 putative PBP binding loops; other site 1313172011535 ABC-ATPase subunit interface; other site 1313172011536 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1313172011537 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1313172011538 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1313172011539 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1313172011540 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 1313172011541 dimerization interface [polypeptide binding]; other site 1313172011542 ligand binding site [chemical binding]; other site 1313172011543 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1313172011544 beta-galactosidase; Region: BGL; TIGR03356 1313172011545 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1313172011546 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1313172011547 Walker A/P-loop; other site 1313172011548 ATP binding site [chemical binding]; other site 1313172011549 Q-loop/lid; other site 1313172011550 ABC transporter signature motif; other site 1313172011551 Walker B; other site 1313172011552 D-loop; other site 1313172011553 H-loop/switch region; other site 1313172011554 TOBE domain; Region: TOBE_2; pfam08402 1313172011555 Response regulator receiver domain; Region: Response_reg; pfam00072 1313172011556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172011557 active site 1313172011558 phosphorylation site [posttranslational modification] 1313172011559 intermolecular recognition site; other site 1313172011560 dimerization interface [polypeptide binding]; other site 1313172011561 Part of AAA domain; Region: AAA_19; pfam13245 1313172011562 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1313172011563 AAA domain; Region: AAA_12; pfam13087 1313172011564 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 1313172011565 metal binding site [ion binding]; metal-binding site 1313172011566 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1313172011567 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1313172011568 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 1313172011569 S-adenosylmethionine binding site [chemical binding]; other site 1313172011570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1313172011571 Part of AAA domain; Region: AAA_19; pfam13245 1313172011572 Cytochrome P450; Region: p450; cl12078 1313172011573 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1313172011574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1313172011575 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1313172011576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172011577 NAD(P) binding site [chemical binding]; other site 1313172011578 active site 1313172011579 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 1313172011580 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172011581 SnoaL-like domain; Region: SnoaL_4; pfam13577 1313172011582 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1313172011583 classical (c) SDRs; Region: SDR_c; cd05233 1313172011584 NAD(P) binding site [chemical binding]; other site 1313172011585 active site 1313172011586 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1313172011587 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1313172011588 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1313172011589 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1313172011590 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172011591 intersubunit interface [polypeptide binding]; other site 1313172011592 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1313172011593 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1313172011594 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1313172011595 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1313172011596 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172011597 siderophore binding site; other site 1313172011598 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1313172011599 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 1313172011600 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172011601 ABC-ATPase subunit interface; other site 1313172011602 dimer interface [polypeptide binding]; other site 1313172011603 putative PBP binding regions; other site 1313172011604 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1313172011605 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1313172011606 ABC-ATPase subunit interface; other site 1313172011607 dimer interface [polypeptide binding]; other site 1313172011608 putative PBP binding regions; other site 1313172011609 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1313172011610 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1313172011611 Walker A/P-loop; other site 1313172011612 ATP binding site [chemical binding]; other site 1313172011613 Q-loop/lid; other site 1313172011614 ABC transporter signature motif; other site 1313172011615 Walker B; other site 1313172011616 D-loop; other site 1313172011617 H-loop/switch region; other site 1313172011618 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1313172011619 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1313172011620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172011621 Walker A/P-loop; other site 1313172011622 ATP binding site [chemical binding]; other site 1313172011623 Q-loop/lid; other site 1313172011624 ABC transporter signature motif; other site 1313172011625 Walker B; other site 1313172011626 D-loop; other site 1313172011627 H-loop/switch region; other site 1313172011628 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1313172011629 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1313172011630 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1313172011631 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1313172011632 siderophore binding site; other site 1313172011633 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1313172011634 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1313172011635 FAD binding pocket [chemical binding]; other site 1313172011636 FAD binding motif [chemical binding]; other site 1313172011637 phosphate binding motif [ion binding]; other site 1313172011638 NAD binding pocket [chemical binding]; other site 1313172011639 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1313172011640 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1313172011641 FAD binding pocket [chemical binding]; other site 1313172011642 FAD binding motif [chemical binding]; other site 1313172011643 phosphate binding motif [ion binding]; other site 1313172011644 NAD binding pocket [chemical binding]; other site 1313172011645 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1313172011646 dinuclear metal binding motif [ion binding]; other site 1313172011647 major facilitator superfamily transporter; Provisional; Region: PRK05122 1313172011648 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 1313172011649 putative substrate translocation pore; other site 1313172011650 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1313172011651 nudix motif; other site 1313172011652 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1313172011653 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1313172011654 hydrophobic ligand binding site; other site 1313172011655 Protein of unknown function (DUF808); Region: DUF808; cl01002 1313172011656 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1313172011657 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1313172011658 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172011659 Walker A/P-loop; other site 1313172011660 ATP binding site [chemical binding]; other site 1313172011661 Q-loop/lid; other site 1313172011662 ABC transporter signature motif; other site 1313172011663 Walker B; other site 1313172011664 D-loop; other site 1313172011665 H-loop/switch region; other site 1313172011666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1313172011667 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1313172011668 Walker A/P-loop; other site 1313172011669 ATP binding site [chemical binding]; other site 1313172011670 Q-loop/lid; other site 1313172011671 ABC transporter signature motif; other site 1313172011672 Walker B; other site 1313172011673 D-loop; other site 1313172011674 H-loop/switch region; other site 1313172011675 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1313172011676 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172011677 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 1313172011678 active site 1313172011679 Electron transfer DM13; Region: DM13; pfam10517 1313172011680 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1313172011681 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1313172011682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172011683 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1313172011684 Walker A/P-loop; other site 1313172011685 ATP binding site [chemical binding]; other site 1313172011686 Q-loop/lid; other site 1313172011687 ABC transporter signature motif; other site 1313172011688 Walker B; other site 1313172011689 D-loop; other site 1313172011690 H-loop/switch region; other site 1313172011691 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1313172011692 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 1313172011693 dimer interface [polypeptide binding]; other site 1313172011694 active site 1313172011695 CoA binding pocket [chemical binding]; other site 1313172011696 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1313172011697 G1 box; other site 1313172011698 GTP/Mg2+ binding site [chemical binding]; other site 1313172011699 Switch I region; other site 1313172011700 G2 box; other site 1313172011701 G3 box; other site 1313172011702 Switch II region; other site 1313172011703 G4 box; other site 1313172011704 G5 box; other site 1313172011705 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1313172011706 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1313172011707 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1313172011708 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 1313172011709 inhibitor-cofactor binding pocket; inhibition site 1313172011710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1313172011711 catalytic residue [active] 1313172011712 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172011713 Domain of unknown function (DU1801); Region: DUF1801; cl17490 1313172011714 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1313172011715 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 1313172011716 active site 1313172011717 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 1313172011718 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 1313172011719 substrate binding pocket [chemical binding]; other site 1313172011720 active site 1313172011721 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1313172011722 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1313172011723 AzlC protein; Region: AzlC; pfam03591 1313172011724 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 1313172011725 ligand binding site [chemical binding]; other site 1313172011726 Protein of unknown function (DUF1396); Region: DUF1396; pfam07161 1313172011727 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1313172011728 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 1313172011729 putative substrate translocation pore; other site 1313172011730 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1313172011731 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1313172011732 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1313172011733 Predicted transcriptional regulators [Transcription]; Region: COG1733 1313172011734 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 1313172011735 dimerization interface [polypeptide binding]; other site 1313172011736 putative DNA binding site [nucleotide binding]; other site 1313172011737 putative Zn2+ binding site [ion binding]; other site 1313172011738 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1313172011739 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 1313172011740 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1313172011741 short chain dehydrogenase; Provisional; Region: PRK06197 1313172011742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172011743 NAD(P) binding site [chemical binding]; other site 1313172011744 active site 1313172011745 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1313172011746 ATP-grasp domain; Region: ATP-grasp; pfam02222 1313172011747 AIR carboxylase; Region: AIRC; cl00310 1313172011748 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 1313172011749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172011750 NAD(P) binding site [chemical binding]; other site 1313172011751 active site 1313172011752 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1313172011753 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172011754 active site 1313172011755 substrate binding site [chemical binding]; other site 1313172011756 ATP binding site [chemical binding]; other site 1313172011757 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1313172011758 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1313172011759 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011760 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1313172011761 acyl-activating enzyme (AAE) consensus motif; other site 1313172011762 putative AMP binding site [chemical binding]; other site 1313172011763 putative active site [active] 1313172011764 putative CoA binding site [chemical binding]; other site 1313172011765 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1313172011766 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1313172011767 catalytic residue [active] 1313172011768 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1313172011769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1313172011770 MOSC domain; Region: MOSC; pfam03473 1313172011771 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1313172011772 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1313172011773 putative ligand binding site [chemical binding]; other site 1313172011774 NAD binding site [chemical binding]; other site 1313172011775 dimerization interface [polypeptide binding]; other site 1313172011776 catalytic site [active] 1313172011777 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1313172011778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1313172011779 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1313172011780 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1313172011781 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1313172011782 active site 1313172011783 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1313172011784 catalytic triad [active] 1313172011785 dimer interface [polypeptide binding]; other site 1313172011786 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1313172011787 Domains in Na-Ca exchangers and integrin-beta4; Region: Calx_beta; smart00237 1313172011788 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1313172011789 putative active site [active] 1313172011790 Mn binding site [ion binding]; other site 1313172011791 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1313172011792 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1313172011793 PhnA protein; Region: PhnA; pfam03831 1313172011794 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 1313172011795 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 1313172011796 active site 1313172011797 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 1313172011798 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 1313172011799 active site 1313172011800 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1313172011801 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 1313172011802 S-adenosylmethionine binding site [chemical binding]; other site 1313172011803 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1313172011804 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1313172011805 NAD(P) binding site [chemical binding]; other site 1313172011806 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172011807 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172011808 active site 1313172011809 Protein of unknown function (DUF419); Region: DUF419; cl15265 1313172011810 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 1313172011811 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1313172011812 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 1313172011813 active site 1313172011814 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 1313172011815 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1313172011816 active site 1313172011817 catalytic tetrad [active] 1313172011818 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 1313172011819 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 1313172011820 active site 1313172011821 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172011822 Zn2+ binding site [ion binding]; other site 1313172011823 Mg2+ binding site [ion binding]; other site 1313172011824 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1313172011825 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 1313172011826 active site pocket [active] 1313172011827 Lactoylglutathione lyase and related lyases [Amino acid transport and metabolism]; Region: GloA; COG0346 1313172011828 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172011829 active site 1313172011830 metal binding site [ion binding]; metal-binding site 1313172011831 substrate binding pocket [chemical binding]; other site 1313172011832 active site 1313172011833 iron coordination sites [ion binding]; other site 1313172011834 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1313172011835 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1313172011836 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 1313172011837 TM-ABC transporter signature motif; other site 1313172011838 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 1313172011839 TM-ABC transporter signature motif; other site 1313172011840 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1313172011841 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1313172011842 Walker A/P-loop; other site 1313172011843 ATP binding site [chemical binding]; other site 1313172011844 Q-loop/lid; other site 1313172011845 ABC transporter signature motif; other site 1313172011846 Walker B; other site 1313172011847 D-loop; other site 1313172011848 H-loop/switch region; other site 1313172011849 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1313172011850 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1313172011851 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172011852 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 1313172011853 [2Fe-2S] cluster binding site [ion binding]; other site 1313172011854 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172011855 hydrophobic ligand binding site; other site 1313172011856 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1313172011857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1313172011858 acyl-activating enzyme (AAE) consensus motif; other site 1313172011859 AMP binding site [chemical binding]; other site 1313172011860 active site 1313172011861 CoA binding site [chemical binding]; other site 1313172011862 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1313172011863 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1313172011864 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1313172011865 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1313172011866 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1313172011867 Cupin domain; Region: Cupin_2; cl17218 1313172011868 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172011869 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 1313172011870 active site 1313172011871 metal binding site [ion binding]; metal-binding site 1313172011872 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1313172011873 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 1313172011874 [2Fe-2S] cluster binding site [ion binding]; other site 1313172011875 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1313172011876 hydrophobic ligand binding site; other site 1313172011877 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1313172011878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1313172011879 DNA-binding site [nucleotide binding]; DNA binding site 1313172011880 FCD domain; Region: FCD; pfam07729 1313172011881 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1313172011882 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1313172011883 active site 1313172011884 metal binding site [ion binding]; metal-binding site 1313172011885 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1313172011886 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1313172011887 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 1313172011888 Ecdysteroid kinase; Region: EcKinase; cl17738 1313172011889 Phosphotransferase enzyme family; Region: APH; pfam01636 1313172011890 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1313172011891 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1313172011892 Walker A/P-loop; other site 1313172011893 ATP binding site [chemical binding]; other site 1313172011894 Q-loop/lid; other site 1313172011895 ABC transporter signature motif; other site 1313172011896 Walker B; other site 1313172011897 D-loop; other site 1313172011898 H-loop/switch region; other site 1313172011899 NMT1/THI5 like; Region: NMT1; pfam09084 1313172011900 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1313172011901 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 1313172011902 dimer interface [polypeptide binding]; other site 1313172011903 conserved gate region; other site 1313172011904 ABC-ATPase subunit interface; other site 1313172011905 Domain of unknown function DUF77; Region: DUF77; pfam01910 1313172011906 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1313172011907 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1313172011908 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1313172011909 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172011910 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 1313172011911 DNA binding residues [nucleotide binding] 1313172011912 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1313172011913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1313172011914 Walker A/P-loop; other site 1313172011915 ATP binding site [chemical binding]; other site 1313172011916 Q-loop/lid; other site 1313172011917 ABC transporter signature motif; other site 1313172011918 Walker B; other site 1313172011919 D-loop; other site 1313172011920 H-loop/switch region; other site 1313172011921 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1313172011922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1313172011923 active site 1313172011924 phosphorylation site [posttranslational modification] 1313172011925 intermolecular recognition site; other site 1313172011926 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 1313172011927 DNA binding residues [nucleotide binding] 1313172011928 dimerization interface [polypeptide binding]; other site 1313172011929 Histidine kinase; Region: HisKA_3; pfam07730 1313172011930 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1313172011931 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1313172011932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1313172011933 Amidohydrolase; Region: Amidohydro_2; pfam04909 1313172011934 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1313172011935 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1313172011936 short chain dehydrogenase; Validated; Region: PRK06182 1313172011937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1313172011938 NAD(P) binding site [chemical binding]; other site 1313172011939 active site 1313172011940 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1313172011941 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1313172011942 MarR family; Region: MarR_2; pfam12802 1313172011943 2TM domain; Region: 2TM; pfam13239 1313172011944 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1313172011945 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 1313172011946 non-specific DNA binding site [nucleotide binding]; other site 1313172011947 salt bridge; other site 1313172011948 sequence-specific DNA binding site [nucleotide binding]; other site 1313172011949 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1313172011950 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1313172011951 oligomeric interface; other site 1313172011952 putative active site [active] 1313172011953 homodimer interface [polypeptide binding]; other site 1313172011954 replicative DNA helicase; Region: DnaB; TIGR00665 1313172011955 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1313172011956 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 1313172011957 Walker A motif; other site 1313172011958 ATP binding site [chemical binding]; other site 1313172011959 Walker B motif; other site 1313172011960 DNA binding loops [nucleotide binding] 1313172011961 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1313172011962 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1313172011963 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1313172011964 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1313172011965 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1313172011966 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 1313172011967 dimer interface [polypeptide binding]; other site 1313172011968 ssDNA binding site [nucleotide binding]; other site 1313172011969 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1313172011970 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1313172011971 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1313172011972 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 1313172011973 S-adenosylmethionine binding site [chemical binding]; other site 1313172011974 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1313172011975 PAS fold; Region: PAS_4; pfam08448 1313172011976 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 1313172011977 putative active site [active] 1313172011978 heme pocket [chemical binding]; other site 1313172011979 PAS domain S-box; Region: sensory_box; TIGR00229 1313172011980 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 1313172011981 putative active site [active] 1313172011982 heme pocket [chemical binding]; other site 1313172011983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1313172011984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1313172011985 metal binding site [ion binding]; metal-binding site 1313172011986 active site 1313172011987 I-site; other site 1313172011988 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1313172011989 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1313172011990 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 1313172011991 active site 1313172011992 NTP binding site [chemical binding]; other site 1313172011993 metal binding triad [ion binding]; metal-binding site 1313172011994 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1313172011995 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1313172011996 Zn2+ binding site [ion binding]; other site 1313172011997 Mg2+ binding site [ion binding]; other site 1313172011998 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1313172011999 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1313172012000 Coenzyme A binding pocket [chemical binding]; other site 1313172012001 EDD domain protein, DegV family; Region: DegV; TIGR00762 1313172012002 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1313172012003 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1313172012004 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1313172012005 active site 1313172012006 ATP binding site [chemical binding]; other site 1313172012007 substrate binding site [chemical binding]; other site 1313172012008 activation loop (A-loop); other site 1313172012009 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1313172012010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1313172012011 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 1313172012012 DNA binding residues [nucleotide binding] 1313172012013 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1313172012014 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 1313172012015 substrate binding site [chemical binding]; other site 1313172012016 oxyanion hole (OAH) forming residues; other site 1313172012017 trimer interface [polypeptide binding]; other site 1313172012018 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1313172012019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1313172012020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1313172012021 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1313172012022 ArsC family; Region: ArsC; pfam03960 1313172012023 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 1313172012024 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1313172012025 catalytic residues [active] 1313172012026 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1313172012027 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; cl02713 1313172012028 active site 1313172012029 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1313172012030 ParB-like nuclease domain; Region: ParBc; pfam02195 1313172012031 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1313172012032 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 1313172012033 P-loop; other site 1313172012034 Magnesium ion binding site [ion binding]; other site 1313172012035 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 1313172012036 Magnesium ion binding site [ion binding]; other site 1313172012037 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 1313172012038 S-adenosylmethionine binding site [chemical binding]; other site 1313172012039 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1313172012040 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1313172012041 RxxxH motif; other site 1313172012042 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1313172012043 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1313172012044 Haemolytic domain; Region: Haemolytic; cl00506 1313172012045 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399