-- dump date 20140619_131413 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1048260000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1048260000002 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 1048260000003 Walker A motif; other site 1048260000004 ATP binding site [chemical binding]; other site 1048260000005 Walker B motif; other site 1048260000006 arginine finger; other site 1048260000007 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 1048260000008 DnaA box-binding interface [nucleotide binding]; other site 1048260000009 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 1048260000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1048260000011 putative DNA binding surface [nucleotide binding]; other site 1048260000012 dimer interface [polypeptide binding]; other site 1048260000013 beta-clamp/clamp loader binding surface; other site 1048260000014 beta-clamp/translesion DNA polymerase binding surface; other site 1048260000015 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1048260000016 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 1048260000017 Mg2+ binding site [ion binding]; other site 1048260000018 G-X-G motif; other site 1048260000019 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 1048260000020 anchoring element; other site 1048260000021 dimer interface [polypeptide binding]; other site 1048260000022 ATP binding site [chemical binding]; other site 1048260000023 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 1048260000024 active site 1048260000025 putative metal-binding site [ion binding]; other site 1048260000026 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1048260000027 DNA gyrase subunit A; Validated; Region: PRK05560 1048260000028 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 1048260000029 CAP-like domain; other site 1048260000030 active site 1048260000031 primary dimer interface [polypeptide binding]; other site 1048260000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048260000033 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048260000034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048260000035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048260000036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048260000037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048260000038 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 1048260000039 binding surface 1048260000040 TPR motif; other site 1048260000041 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1048260000042 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 1048260000043 FeS/SAM binding site; other site 1048260000044 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1048260000045 Ligand Binding Site [chemical binding]; other site 1048260000046 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1048260000047 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 1048260000048 interface (dimer of trimers) [polypeptide binding]; other site 1048260000049 Substrate-binding/catalytic site; other site 1048260000050 Zn-binding sites [ion binding]; other site 1048260000051 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 1048260000052 SmpB-tmRNA interface; other site 1048260000053 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1048260000054 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1048260000055 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1048260000056 active site 1048260000057 Int/Topo IB signature motif; other site 1048260000058 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260000059 MULE transposase domain; Region: MULE; pfam10551 1048260000060 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260000061 MULE transposase domain; Region: MULE; pfam10551 1048260000062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260000063 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260000064 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260000065 MULE transposase domain; Region: MULE; pfam10551 1048260000066 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 1048260000067 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 1048260000068 ATP binding site [chemical binding]; other site 1048260000069 putative Mg++ binding site [ion binding]; other site 1048260000070 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1048260000071 Protein of unknown function DUF262; Region: DUF262; pfam03235 1048260000072 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1048260000073 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1048260000074 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1048260000075 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 1048260000076 ATP binding site [chemical binding]; other site 1048260000077 putative Mg++ binding site [ion binding]; other site 1048260000078 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1048260000079 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 1048260000080 nucleotide binding region [chemical binding]; other site 1048260000081 ATP-binding site [chemical binding]; other site 1048260000082 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 1048260000083 S-adenosylmethionine binding site [chemical binding]; other site 1048260000084 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1048260000085 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1048260000086 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 1048260000087 S-adenosylmethionine binding site [chemical binding]; other site 1048260000088 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 1048260000089 active site 1048260000090 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1048260000091 EamA-like transporter family; Region: EamA; pfam00892 1048260000092 EamA-like transporter family; Region: EamA; pfam00892 1048260000093 2-isopropylmalate synthase; Validated; Region: PRK03739 1048260000094 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1048260000095 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1048260000096 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1048260000097 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1048260000098 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1048260000099 putative NAD(P) binding site [chemical binding]; other site 1048260000100 hypothetical protein; Provisional; Region: PRK10279 1048260000101 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1048260000102 active site 1048260000103 nucleophile elbow; other site 1048260000104 HD domain; Region: HD_5; pfam13487 1048260000105 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1048260000106 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260000107 Zn2+ binding site [ion binding]; other site 1048260000108 Mg2+ binding site [ion binding]; other site 1048260000109 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1048260000110 active site 1048260000111 8-oxo-dGMP binding site [chemical binding]; other site 1048260000112 nudix motif; other site 1048260000113 metal binding site [ion binding]; metal-binding site 1048260000114 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1048260000115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260000116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260000117 metal binding site [ion binding]; metal-binding site 1048260000118 active site 1048260000119 I-site; other site 1048260000120 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 1048260000121 active site clefts [active] 1048260000122 zinc binding site [ion binding]; other site 1048260000123 dimer interface [polypeptide binding]; other site 1048260000124 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1048260000125 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1048260000126 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1048260000127 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 1048260000128 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1048260000129 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1048260000130 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1048260000131 S-adenosylmethionine binding site [chemical binding]; other site 1048260000132 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1048260000133 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 1048260000134 dimerization interface [polypeptide binding]; other site 1048260000135 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1048260000136 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 1048260000137 putative active site [active] 1048260000138 heme pocket [chemical binding]; other site 1048260000139 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 1048260000140 dimer interface [polypeptide binding]; other site 1048260000141 phosphorylation site [posttranslational modification] 1048260000142 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 1048260000143 ATP binding site [chemical binding]; other site 1048260000144 Mg2+ binding site [ion binding]; other site 1048260000145 G-X-G motif; other site 1048260000146 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1048260000147 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 1048260000148 active site 1048260000149 phosphorylation site [posttranslational modification] 1048260000150 intermolecular recognition site; other site 1048260000151 dimerization interface [polypeptide binding]; other site 1048260000152 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 1048260000153 Walker A motif; other site 1048260000154 ATP binding site [chemical binding]; other site 1048260000155 Walker B motif; other site 1048260000156 arginine finger; other site 1048260000157 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260000158 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 1048260000159 active site 1048260000160 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1048260000161 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1048260000162 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1048260000163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260000164 dimer interface [polypeptide binding]; other site 1048260000165 putative CheW interface [polypeptide binding]; other site 1048260000166 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1048260000167 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260000168 active site 1048260000169 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1048260000170 Transglycosylase; Region: Transgly; pfam00912 1048260000171 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1048260000172 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1048260000173 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 1048260000174 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1048260000175 Phosphoglycerate kinase; Region: PGK; pfam00162 1048260000176 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1048260000177 substrate binding site [chemical binding]; other site 1048260000178 hinge regions; other site 1048260000179 ADP binding site [chemical binding]; other site 1048260000180 catalytic site [active] 1048260000181 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 1048260000182 triosephosphate isomerase; Provisional; Region: PRK14565 1048260000183 substrate binding site [chemical binding]; other site 1048260000184 dimer interface [polypeptide binding]; other site 1048260000185 catalytic triad [active] 1048260000186 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1048260000187 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1048260000188 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1048260000189 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1048260000190 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 1048260000191 dimer interface [polypeptide binding]; other site 1048260000192 conserved gate region; other site 1048260000193 putative PBP binding loops; other site 1048260000194 ABC-ATPase subunit interface; other site 1048260000195 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1048260000196 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 1048260000197 dimer interface [polypeptide binding]; other site 1048260000198 conserved gate region; other site 1048260000199 putative PBP binding loops; other site 1048260000200 ABC-ATPase subunit interface; other site 1048260000201 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1048260000202 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1048260000203 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 1048260000204 motif II; other site 1048260000205 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1048260000206 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1048260000207 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 1048260000208 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1048260000209 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1048260000210 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 1048260000211 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1048260000212 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1048260000213 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1048260000214 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 1048260000215 beta subunit interaction interface [polypeptide binding]; other site 1048260000216 Walker A motif; other site 1048260000217 ATP binding site [chemical binding]; other site 1048260000218 Walker B motif; other site 1048260000219 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1048260000220 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1048260000221 core domain interface [polypeptide binding]; other site 1048260000222 delta subunit interface [polypeptide binding]; other site 1048260000223 epsilon subunit interface [polypeptide binding]; other site 1048260000224 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1048260000225 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1048260000226 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 1048260000227 alpha subunit interaction interface [polypeptide binding]; other site 1048260000228 Walker A motif; other site 1048260000229 ATP binding site [chemical binding]; other site 1048260000230 Walker B motif; other site 1048260000231 inhibitor binding site; inhibition site 1048260000232 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1048260000233 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1048260000234 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 1048260000235 gamma subunit interface [polypeptide binding]; other site 1048260000236 epsilon subunit interface [polypeptide binding]; other site 1048260000237 LBP interface [polypeptide binding]; other site 1048260000238 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1048260000239 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1048260000240 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 1048260000241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048260000242 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 1048260000243 active site 1048260000244 phosphorylation site [posttranslational modification] 1048260000245 intermolecular recognition site; other site 1048260000246 dimerization interface [polypeptide binding]; other site 1048260000247 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 1048260000248 DNA binding site [nucleotide binding] 1048260000249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048260000250 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 1048260000251 dimerization interface [polypeptide binding]; other site 1048260000252 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 1048260000253 dimer interface [polypeptide binding]; other site 1048260000254 phosphorylation site [posttranslational modification] 1048260000255 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 1048260000256 ATP binding site [chemical binding]; other site 1048260000257 Mg2+ binding site [ion binding]; other site 1048260000258 G-X-G motif; other site 1048260000259 PQQ-like domain; Region: PQQ_2; pfam13360 1048260000260 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1048260000261 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1048260000262 PQQ-like domain; Region: PQQ_2; pfam13360 1048260000263 Trp docking motif [polypeptide binding]; other site 1048260000264 active site 1048260000265 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1048260000266 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1048260000267 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 1048260000268 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048260000269 putative substrate translocation pore; other site 1048260000270 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 1048260000271 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1048260000272 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 1048260000273 CHAD domain; Region: CHAD; cl10506 1048260000274 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1048260000275 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1048260000276 dimer interface [polypeptide binding]; other site 1048260000277 active site 1048260000278 metal binding site [ion binding]; metal-binding site 1048260000279 glutathione binding site [chemical binding]; other site 1048260000280 Leucine rich repeat variant; Region: LRV; pfam01816 1048260000281 HEAT repeats; Region: HEAT_2; pfam13646 1048260000282 acetyl-CoA synthetase; Provisional; Region: PRK00174 1048260000283 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1048260000284 active site 1048260000285 CoA binding site [chemical binding]; other site 1048260000286 acyl-activating enzyme (AAE) consensus motif; other site 1048260000287 AMP binding site [chemical binding]; other site 1048260000288 acetate binding site [chemical binding]; other site 1048260000289 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1048260000290 ThiS interaction site; other site 1048260000291 putative active site [active] 1048260000292 tetramer interface [polypeptide binding]; other site 1048260000293 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1048260000294 thiamine phosphate binding site [chemical binding]; other site 1048260000295 active site 1048260000296 pyrophosphate binding site [ion binding]; other site 1048260000297 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1048260000298 Peptidase family M23; Region: Peptidase_M23; pfam01551 1048260000299 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1048260000300 substrate binding site [chemical binding]; other site 1048260000301 dimer interface [polypeptide binding]; other site 1048260000302 ATP binding site [chemical binding]; other site 1048260000303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260000304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260000305 metal binding site [ion binding]; metal-binding site 1048260000306 active site 1048260000307 I-site; other site 1048260000308 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1048260000309 heme-binding site [chemical binding]; other site 1048260000310 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 1048260000311 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1048260000312 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1048260000313 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 1048260000314 active site 1048260000315 dimer interface [polypeptide binding]; other site 1048260000316 motif 1; other site 1048260000317 motif 2; other site 1048260000318 motif 3; other site 1048260000319 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1048260000320 anticodon binding site; other site 1048260000321 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1048260000322 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1048260000323 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1048260000324 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1048260000325 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1048260000326 23S rRNA binding site [nucleotide binding]; other site 1048260000327 L21 binding site [polypeptide binding]; other site 1048260000328 L13 binding site [polypeptide binding]; other site 1048260000329 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK09616 1048260000330 tRNA synthetase B5 domain; Region: B5; pfam03484 1048260000331 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 1048260000332 dimer interface [polypeptide binding]; other site 1048260000333 motif 1; other site 1048260000334 motif 3; other site 1048260000335 motif 2; other site 1048260000336 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 1048260000337 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 1048260000338 dimer interface [polypeptide binding]; other site 1048260000339 motif 1; other site 1048260000340 active site 1048260000341 motif 2; other site 1048260000342 motif 3; other site 1048260000343 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1048260000344 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1048260000345 Walker A/P-loop; other site 1048260000346 ATP binding site [chemical binding]; other site 1048260000347 Q-loop/lid; other site 1048260000348 ABC transporter signature motif; other site 1048260000349 Walker B; other site 1048260000350 D-loop; other site 1048260000351 H-loop/switch region; other site 1048260000352 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1048260000353 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1048260000354 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1048260000355 Walker A/P-loop; other site 1048260000356 ATP binding site [chemical binding]; other site 1048260000357 Q-loop/lid; other site 1048260000358 ABC transporter signature motif; other site 1048260000359 Walker B; other site 1048260000360 D-loop; other site 1048260000361 H-loop/switch region; other site 1048260000362 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1048260000363 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1048260000364 active site 1048260000365 Ycf48-like protein; Provisional; Region: PRK13684 1048260000366 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1048260000367 ferric uptake regulator; Provisional; Region: fur; PRK09462 1048260000368 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1048260000369 metal binding site 2 [ion binding]; metal-binding site 1048260000370 putative DNA binding helix; other site 1048260000371 metal binding site 1 [ion binding]; metal-binding site 1048260000372 dimer interface [polypeptide binding]; other site 1048260000373 structural Zn2+ binding site [ion binding]; other site 1048260000374 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1048260000375 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1048260000376 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1048260000377 GTP1/OBG; Region: GTP1_OBG; pfam01018 1048260000378 Obg GTPase; Region: Obg; cd01898 1048260000379 G1 box; other site 1048260000380 GTP/Mg2+ binding site [chemical binding]; other site 1048260000381 Switch I region; other site 1048260000382 G2 box; other site 1048260000383 G3 box; other site 1048260000384 Switch II region; other site 1048260000385 G4 box; other site 1048260000386 G5 box; other site 1048260000387 gamma-glutamyl kinase; Provisional; Region: PRK05429 1048260000388 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 1048260000389 nucleotide binding site [chemical binding]; other site 1048260000390 homotetrameric interface [polypeptide binding]; other site 1048260000391 putative phosphate binding site [ion binding]; other site 1048260000392 putative allosteric binding site; other site 1048260000393 PUA domain; Region: PUA; pfam01472 1048260000394 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1048260000395 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1048260000396 putative catalytic cysteine [active] 1048260000397 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1048260000398 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1048260000399 active site 1048260000400 (T/H)XGH motif; other site 1048260000401 Oligomerisation domain; Region: Oligomerisation; pfam02410 1048260000402 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 1048260000403 TPR motif; other site 1048260000404 binding surface 1048260000405 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 1048260000406 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1048260000407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260000408 active site 1048260000409 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1048260000410 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1048260000411 ATP binding site [chemical binding]; other site 1048260000412 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1048260000413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1048260000414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1048260000415 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 1048260000416 dimerization interface [polypeptide binding]; other site 1048260000417 AAA domain; Region: AAA_23; pfam13476 1048260000418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260000419 Walker A/P-loop; other site 1048260000420 ATP binding site [chemical binding]; other site 1048260000421 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1048260000422 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1048260000423 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1048260000424 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 1048260000425 homodimer interface [polypeptide binding]; other site 1048260000426 substrate-cofactor binding pocket; other site 1048260000427 catalytic residue [active] 1048260000428 DNA polymerase I; Provisional; Region: PRK05755 1048260000429 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1048260000430 active site 1048260000431 metal binding site 1 [ion binding]; metal-binding site 1048260000432 putative 5' ssDNA interaction site; other site 1048260000433 metal binding site 3; metal-binding site 1048260000434 metal binding site 2 [ion binding]; metal-binding site 1048260000435 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1048260000436 putative DNA binding site [nucleotide binding]; other site 1048260000437 putative metal binding site [ion binding]; other site 1048260000438 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1048260000439 active site 1048260000440 substrate binding site [chemical binding]; other site 1048260000441 catalytic site [active] 1048260000442 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1048260000443 active site 1048260000444 DNA binding site [nucleotide binding] 1048260000445 catalytic site [active] 1048260000446 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 1048260000447 TPR motif; other site 1048260000448 TPR repeat; Region: TPR_11; pfam13414 1048260000449 binding surface 1048260000450 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1048260000451 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 1048260000452 CoA-binding site [chemical binding]; other site 1048260000453 ATP-binding [chemical binding]; other site 1048260000454 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1048260000455 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1048260000456 active site 1048260000457 tetramer interface; other site 1048260000458 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1048260000459 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 1048260000460 Walker A motif; other site 1048260000461 ATP binding site [chemical binding]; other site 1048260000462 Walker B motif; other site 1048260000463 arginine finger; other site 1048260000464 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1048260000465 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1048260000466 ATP binding site [chemical binding]; other site 1048260000467 dimerization interface [polypeptide binding]; other site 1048260000468 thiamine monophosphate kinase; Provisional; Region: PRK05731 1048260000469 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1048260000470 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1048260000471 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1048260000472 ligand binding site [chemical binding]; other site 1048260000473 ribonuclease R; Region: RNase_R; TIGR02063 1048260000474 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1048260000475 RNB domain; Region: RNB; pfam00773 1048260000476 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1048260000477 RNA binding site [nucleotide binding]; other site 1048260000478 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1048260000479 Fe-S cluster binding site [ion binding]; other site 1048260000480 DNA binding site [nucleotide binding] 1048260000481 active site 1048260000482 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1048260000483 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 1048260000484 DNA binding residues [nucleotide binding] 1048260000485 dimerization interface [polypeptide binding]; other site 1048260000486 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1048260000487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048260000488 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048260000489 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1048260000490 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1048260000491 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1048260000492 CPxP motif; other site 1048260000493 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1048260000494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260000495 Zn2+ binding site [ion binding]; other site 1048260000496 Mg2+ binding site [ion binding]; other site 1048260000497 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 1048260000498 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1048260000499 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1048260000500 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1048260000501 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 1048260000502 homodimer interface [polypeptide binding]; other site 1048260000503 metal binding site [ion binding]; metal-binding site 1048260000504 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 1048260000505 homodimer interface [polypeptide binding]; other site 1048260000506 active site 1048260000507 putative chemical substrate binding site [chemical binding]; other site 1048260000508 metal binding site [ion binding]; metal-binding site 1048260000509 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 1048260000510 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1048260000511 Walker A motif; other site 1048260000512 ATP binding site [chemical binding]; other site 1048260000513 Walker B motif; other site 1048260000514 arginine finger; other site 1048260000515 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260000516 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 1048260000517 nucleoside/Zn binding site; other site 1048260000518 dimer interface [polypeptide binding]; other site 1048260000519 catalytic motif [active] 1048260000520 TPR repeat; Region: TPR_11; pfam13414 1048260000521 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 1048260000522 binding surface 1048260000523 TPR motif; other site 1048260000524 TPR repeat; Region: TPR_11; pfam13414 1048260000525 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 1048260000526 binding surface 1048260000527 TPR motif; other site 1048260000528 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1048260000529 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1048260000530 G1 box; other site 1048260000531 putative GEF interaction site [polypeptide binding]; other site 1048260000532 GTP/Mg2+ binding site [chemical binding]; other site 1048260000533 Switch I region; other site 1048260000534 G2 box; other site 1048260000535 G3 box; other site 1048260000536 Switch II region; other site 1048260000537 G4 box; other site 1048260000538 G5 box; other site 1048260000539 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 1048260000540 recombination protein RecR; Reviewed; Region: recR; PRK00076 1048260000541 RecR protein; Region: RecR; pfam02132 1048260000542 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 1048260000543 putative active site [active] 1048260000544 putative metal-binding site [ion binding]; other site 1048260000545 tetramer interface [polypeptide binding]; other site 1048260000546 hypothetical protein; Validated; Region: PRK00153 1048260000547 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1048260000548 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 1048260000549 Walker A motif; other site 1048260000550 ATP binding site [chemical binding]; other site 1048260000551 Walker B motif; other site 1048260000552 arginine finger; other site 1048260000553 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1048260000554 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1048260000555 CPxP motif; other site 1048260000556 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1048260000557 putative acyl-acceptor binding pocket; other site 1048260000558 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260000559 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260000560 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260000561 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1048260000562 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1048260000563 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1048260000564 classical (c) SDRs; Region: SDR_c; cd05233 1048260000565 NAD(P) binding site [chemical binding]; other site 1048260000566 active site 1048260000567 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 1048260000568 binding surface 1048260000569 TPR motif; other site 1048260000570 diaminopimelate epimerase; Provisional; Region: PRK13577 1048260000571 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1048260000572 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1048260000573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260000574 I-site; other site 1048260000575 active site 1048260000576 metal binding site [ion binding]; metal-binding site 1048260000577 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1048260000578 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1048260000579 catalytic residues [active] 1048260000580 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1048260000581 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 1048260000582 S-adenosylmethionine binding site [chemical binding]; other site 1048260000583 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 1048260000584 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 1048260000585 S-adenosylmethionine binding site [chemical binding]; other site 1048260000586 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 1048260000587 active site residue [active] 1048260000588 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1048260000589 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1048260000590 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1048260000591 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260000592 dimer interface [polypeptide binding]; other site 1048260000593 putative CheW interface [polypeptide binding]; other site 1048260000594 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1048260000595 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1048260000596 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1048260000597 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1048260000598 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 1048260000599 lipoyl attachment site [posttranslational modification]; other site 1048260000600 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 1048260000601 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 1048260000602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260000603 catalytic residue [active] 1048260000604 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 1048260000605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260000606 catalytic residue [active] 1048260000607 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1048260000608 HDOD domain; Region: HDOD; pfam08668 1048260000609 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260000610 Zn2+ binding site [ion binding]; other site 1048260000611 Mg2+ binding site [ion binding]; other site 1048260000612 HDOD domain; Region: HDOD; pfam08668 1048260000613 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260000614 Zn2+ binding site [ion binding]; other site 1048260000615 Mg2+ binding site [ion binding]; other site 1048260000616 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1048260000617 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1048260000618 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 1048260000619 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1048260000620 Walker A motif; other site 1048260000621 ATP binding site [chemical binding]; other site 1048260000622 Walker B motif; other site 1048260000623 arginine finger; other site 1048260000624 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260000625 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1048260000626 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 1048260000627 binding surface 1048260000628 TPR motif; other site 1048260000629 PAS domain; Region: PAS; smart00091 1048260000630 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048260000631 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 1048260000632 dimer interface [polypeptide binding]; other site 1048260000633 phosphorylation site [posttranslational modification] 1048260000634 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 1048260000635 ATP binding site [chemical binding]; other site 1048260000636 Mg2+ binding site [ion binding]; other site 1048260000637 G-X-G motif; other site 1048260000638 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1048260000639 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 1048260000640 active site 1048260000641 phosphorylation site [posttranslational modification] 1048260000642 intermolecular recognition site; other site 1048260000643 dimerization interface [polypeptide binding]; other site 1048260000644 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 1048260000645 Walker A motif; other site 1048260000646 ATP binding site [chemical binding]; other site 1048260000647 Walker B motif; other site 1048260000648 arginine finger; other site 1048260000649 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260000650 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 1048260000651 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1048260000652 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1048260000653 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1048260000654 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1048260000655 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1048260000656 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1048260000657 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1048260000658 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1048260000659 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1048260000660 MgtE intracellular N domain; Region: MgtE_N; smart00924 1048260000661 FliG C-terminal domain; Region: FliG_C; pfam01706 1048260000662 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 1048260000663 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1048260000664 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 1048260000665 Walker A motif; other site 1048260000666 ATP binding site [chemical binding]; other site 1048260000667 Walker B motif; other site 1048260000668 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1048260000669 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1048260000670 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1048260000671 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1048260000672 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1048260000673 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1048260000674 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1048260000675 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1048260000676 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1048260000677 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1048260000678 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1048260000679 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1048260000680 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1048260000681 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1048260000682 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1048260000683 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1048260000684 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1048260000685 FHIPEP family; Region: FHIPEP; pfam00771 1048260000686 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1048260000687 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 1048260000688 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1048260000689 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1048260000690 P-loop; other site 1048260000691 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1048260000692 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1048260000693 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1048260000694 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 1048260000695 DNA binding residues [nucleotide binding] 1048260000696 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1048260000697 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1048260000698 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1048260000699 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 1048260000700 active site 1048260000701 phosphorylation site [posttranslational modification] 1048260000702 intermolecular recognition site; other site 1048260000703 dimerization interface [polypeptide binding]; other site 1048260000704 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1048260000705 putative binding surface; other site 1048260000706 active site 1048260000707 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1048260000708 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1048260000709 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 1048260000710 ATP binding site [chemical binding]; other site 1048260000711 Mg2+ binding site [ion binding]; other site 1048260000712 G-X-G motif; other site 1048260000713 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1048260000714 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1048260000715 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 1048260000716 active site 1048260000717 phosphorylation site [posttranslational modification] 1048260000718 intermolecular recognition site; other site 1048260000719 dimerization interface [polypeptide binding]; other site 1048260000720 CheB methylesterase; Region: CheB_methylest; pfam01339 1048260000721 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1048260000722 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 1048260000723 dimerization interface [polypeptide binding]; other site 1048260000724 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260000725 dimer interface [polypeptide binding]; other site 1048260000726 putative CheW interface [polypeptide binding]; other site 1048260000727 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1048260000728 putative CheA interaction surface; other site 1048260000729 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1048260000730 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1048260000731 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1048260000732 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1048260000733 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1048260000734 ligand binding site [chemical binding]; other site 1048260000735 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1048260000736 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1048260000737 classical (c) SDRs; Region: SDR_c; cd05233 1048260000738 NAD(P) binding site [chemical binding]; other site 1048260000739 active site 1048260000740 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 1048260000741 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 1048260000742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260000743 homodimer interface [polypeptide binding]; other site 1048260000744 catalytic residue [active] 1048260000745 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; cl00233 1048260000746 catalytic center binding site [active] 1048260000747 ATP binding site [chemical binding]; other site 1048260000748 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 1048260000749 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1048260000750 minor groove reading motif; other site 1048260000751 helix-hairpin-helix signature motif; other site 1048260000752 substrate binding pocket [chemical binding]; other site 1048260000753 active site 1048260000754 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1048260000755 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1048260000756 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 1048260000757 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1048260000758 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 1048260000759 dimer interface [polypeptide binding]; other site 1048260000760 conserved gate region; other site 1048260000761 putative PBP binding loops; other site 1048260000762 ABC-ATPase subunit interface; other site 1048260000763 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 1048260000764 dimer interface [polypeptide binding]; other site 1048260000765 conserved gate region; other site 1048260000766 putative PBP binding loops; other site 1048260000767 ABC-ATPase subunit interface; other site 1048260000768 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1048260000769 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048260000770 Walker A/P-loop; other site 1048260000771 ATP binding site [chemical binding]; other site 1048260000772 Q-loop/lid; other site 1048260000773 ABC transporter signature motif; other site 1048260000774 Walker B; other site 1048260000775 D-loop; other site 1048260000776 H-loop/switch region; other site 1048260000777 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1048260000778 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1048260000779 DNA protecting protein DprA; Region: dprA; TIGR00732 1048260000780 DNA topoisomerase I; Validated; Region: PRK06599 1048260000781 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 1048260000782 active site 1048260000783 metal binding site [ion binding]; metal-binding site 1048260000784 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 1048260000785 domain I; other site 1048260000786 DNA binding groove [nucleotide binding] 1048260000787 phosphate binding site [ion binding]; other site 1048260000788 domain II; other site 1048260000789 domain III; other site 1048260000790 nucleotide binding site [chemical binding]; other site 1048260000791 catalytic site [active] 1048260000792 domain IV; other site 1048260000793 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1048260000794 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1048260000795 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1048260000796 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1048260000797 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1048260000798 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1048260000799 Glucose inhibited division protein A; Region: GIDA; pfam01134 1048260000800 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1048260000801 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 1048260000802 active site 1048260000803 DNA binding site [nucleotide binding] 1048260000804 Int/Topo IB signature motif; other site 1048260000805 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1048260000806 active site 1048260000807 HslU subunit interaction site [polypeptide binding]; other site 1048260000808 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1048260000809 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 1048260000810 Walker A motif; other site 1048260000811 ATP binding site [chemical binding]; other site 1048260000812 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 1048260000813 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1048260000814 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 1048260000815 feedback inhibition sensing region; other site 1048260000816 homohexameric interface [polypeptide binding]; other site 1048260000817 nucleotide binding site [chemical binding]; other site 1048260000818 N-acetyl-L-glutamate binding site [chemical binding]; other site 1048260000819 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1048260000820 trimer interface [polypeptide binding]; other site 1048260000821 active site 1048260000822 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260000823 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260000824 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1048260000825 Histidine kinase; Region: His_kinase; pfam06580 1048260000826 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260000827 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260000828 Predicted methyltransferases [General function prediction only]; Region: COG0313 1048260000829 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1048260000830 putative SAM binding site [chemical binding]; other site 1048260000831 putative homodimer interface [polypeptide binding]; other site 1048260000832 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1048260000833 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1048260000834 active site 1048260000835 ATP-binding site [chemical binding]; other site 1048260000836 pantoate-binding site; other site 1048260000837 HXXH motif; other site 1048260000838 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1048260000839 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1048260000840 active site 1048260000841 catalytic triad [active] 1048260000842 dimer interface [polypeptide binding]; other site 1048260000843 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1048260000844 putative metal binding site [ion binding]; other site 1048260000845 putative homodimer interface [polypeptide binding]; other site 1048260000846 putative homotetramer interface [polypeptide binding]; other site 1048260000847 putative homodimer-homodimer interface [polypeptide binding]; other site 1048260000848 putative allosteric switch controlling residues; other site 1048260000849 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260000850 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 1048260000851 TPR motif; other site 1048260000852 binding surface 1048260000853 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1048260000854 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1048260000855 dimer interface [polypeptide binding]; other site 1048260000856 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1048260000857 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1048260000858 catalytic residues [active] 1048260000859 Int/Topo IB signature motif; other site 1048260000860 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1048260000861 active site 1048260000862 NTP binding site [chemical binding]; other site 1048260000863 metal binding triad [ion binding]; metal-binding site 1048260000864 antibiotic binding site [chemical binding]; other site 1048260000865 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1048260000866 Homeodomain-like domain; Region: HTH_23; cl17451 1048260000867 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1048260000868 Homeodomain-like domain; Region: HTH_23; cl17451 1048260000869 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1048260000870 Homeodomain-like domain; Region: HTH_23; cl17451 1048260000871 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1048260000872 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260000873 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260000874 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260000875 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260000876 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260000877 MULE transposase domain; Region: MULE; pfam10551 1048260000878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260000879 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260000880 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260000881 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1048260000882 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 1048260000883 non-specific DNA binding site [nucleotide binding]; other site 1048260000884 salt bridge; other site 1048260000885 sequence-specific DNA binding site [nucleotide binding]; other site 1048260000886 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1048260000887 Homeodomain-like domain; Region: HTH_23; pfam13384 1048260000888 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 1048260000889 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048260000890 putative substrate translocation pore; other site 1048260000891 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 1048260000892 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1048260000893 FAD binding pocket [chemical binding]; other site 1048260000894 conserved FAD binding motif [chemical binding]; other site 1048260000895 phosphate binding motif [ion binding]; other site 1048260000896 beta-alpha-beta structure motif; other site 1048260000897 NAD binding pocket [chemical binding]; other site 1048260000898 PIN domain; Region: PIN_3; cl17397 1048260000899 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1048260000900 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1048260000901 putative active site [active] 1048260000902 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 1048260000903 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 1048260000904 FeS/SAM binding site; other site 1048260000905 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 1048260000906 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1048260000907 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1048260000908 putative active site [active] 1048260000909 homotetrameric interface [polypeptide binding]; other site 1048260000910 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 1048260000911 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1048260000912 active site 1048260000913 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1048260000914 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1048260000915 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 1048260000916 Walker A motif; other site 1048260000917 ATP binding site [chemical binding]; other site 1048260000918 Walker B motif; other site 1048260000919 arginine finger; other site 1048260000920 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1048260000921 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 1048260000922 RuvA N terminal domain; Region: RuvA_N; pfam01330 1048260000923 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1048260000924 DNA binding site [nucleotide binding] 1048260000925 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; cl17280 1048260000926 active site 1048260000927 putative DNA-binding cleft [nucleotide binding]; other site 1048260000928 dimer interface [polypeptide binding]; other site 1048260000929 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1048260000930 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1048260000931 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 1048260000932 protein binding site [polypeptide binding]; other site 1048260000933 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 1048260000934 protein binding site [polypeptide binding]; other site 1048260000935 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 1048260000936 active site 1048260000937 phosphorylation site [posttranslational modification] 1048260000938 intermolecular recognition site; other site 1048260000939 dimerization interface [polypeptide binding]; other site 1048260000940 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1048260000941 HAMP domain; Region: HAMP; pfam00672 1048260000942 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 1048260000943 dimer interface [polypeptide binding]; other site 1048260000944 phosphorylation site [posttranslational modification] 1048260000945 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 1048260000946 ATP binding site [chemical binding]; other site 1048260000947 Mg2+ binding site [ion binding]; other site 1048260000948 G-X-G motif; other site 1048260000949 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1048260000950 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 1048260000951 trimer interface [polypeptide binding]; other site 1048260000952 putative metal binding site [ion binding]; other site 1048260000953 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1048260000954 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 1048260000955 motif II; other site 1048260000956 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1048260000957 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1048260000958 DsrE/DsrF-like family; Region: DrsE; pfam02635 1048260000959 DsrE/DsrF-like family; Region: DrsE; cl00672 1048260000960 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1048260000961 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 1048260000962 dimer interface [polypeptide binding]; other site 1048260000963 conserved gate region; other site 1048260000964 putative PBP binding loops; other site 1048260000965 ABC-ATPase subunit interface; other site 1048260000966 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1048260000967 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 1048260000968 dimer interface [polypeptide binding]; other site 1048260000969 conserved gate region; other site 1048260000970 putative PBP binding loops; other site 1048260000971 ABC-ATPase subunit interface; other site 1048260000972 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1048260000973 nucleotidyl binding site; other site 1048260000974 metal binding site [ion binding]; metal-binding site 1048260000975 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1048260000976 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 1048260000977 homodimer interface [polypeptide binding]; other site 1048260000978 substrate-cofactor binding pocket; other site 1048260000979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260000980 catalytic residue [active] 1048260000981 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1048260000982 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1048260000983 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1048260000984 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1048260000985 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1048260000986 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 1048260000987 metal-binding site [ion binding] 1048260000988 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1048260000989 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 1048260000990 metal-binding site [ion binding] 1048260000991 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048260000992 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1048260000993 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 1048260000994 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1048260000995 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1048260000996 PLD-like domain; Region: PLDc_2; pfam13091 1048260000997 putative active site [active] 1048260000998 catalytic site [active] 1048260000999 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 1048260001000 catalytic residues [active] 1048260001001 Peptidase family M1; Region: Peptidase_M1; pfam01433 1048260001002 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1048260001003 Zn binding site [ion binding]; other site 1048260001004 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1048260001005 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 1048260001006 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1048260001007 hypothetical protein; Provisional; Region: PRK02237 1048260001008 excinuclease ABC subunit B; Provisional; Region: PRK05298 1048260001009 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 1048260001010 ATP binding site [chemical binding]; other site 1048260001011 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 1048260001012 nucleotide binding region [chemical binding]; other site 1048260001013 ATP-binding site [chemical binding]; other site 1048260001014 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1048260001015 UvrB/uvrC motif; Region: UVR; pfam02151 1048260001016 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 1048260001017 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 1048260001018 dimerization interface [polypeptide binding]; other site 1048260001019 putative DNA binding site [nucleotide binding]; other site 1048260001020 putative Zn2+ binding site [ion binding]; other site 1048260001021 Outer membrane efflux protein; Region: OEP; pfam02321 1048260001022 Outer membrane efflux protein; Region: OEP; pfam02321 1048260001023 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260001024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260001025 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260001026 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260001027 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1048260001028 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1048260001029 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 1048260001030 putative NAD(P) binding site [chemical binding]; other site 1048260001031 putative substrate binding site [chemical binding]; other site 1048260001032 catalytic Zn binding site [ion binding]; other site 1048260001033 structural Zn binding site [ion binding]; other site 1048260001034 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1048260001035 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1048260001036 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1048260001037 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 1048260001038 catalytic triad [active] 1048260001039 proteasome ATPase; Region: pup_AAA; TIGR03689 1048260001040 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 1048260001041 Walker A motif; other site 1048260001042 ATP binding site [chemical binding]; other site 1048260001043 Walker B motif; other site 1048260001044 arginine finger; other site 1048260001045 Pup-ligase protein; Region: Pup_ligase; pfam03136 1048260001046 Pup-like protein; Region: Pup; pfam05639 1048260001047 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 1048260001048 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 1048260001049 active site 1048260001050 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 1048260001051 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 1048260001052 active site 1048260001053 Pup-ligase protein; Region: Pup_ligase; pfam03136 1048260001054 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 1048260001055 putative substrate translocation pore; other site 1048260001056 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1048260001057 Sel1-like repeats; Region: SEL1; smart00671 1048260001058 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1048260001059 Ectoine synthase; Region: Ectoine_synth; pfam06339 1048260001060 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1048260001061 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 1048260001062 inhibitor-cofactor binding pocket; inhibition site 1048260001063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260001064 catalytic residue [active] 1048260001065 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1048260001066 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048260001067 Coenzyme A binding pocket [chemical binding]; other site 1048260001068 proline/glycine betaine transporter; Provisional; Region: PRK10642 1048260001069 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 1048260001070 putative substrate translocation pore; other site 1048260001071 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1048260001072 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 1048260001073 active site 1048260001074 DNA binding site [nucleotide binding] 1048260001075 Int/Topo IB signature motif; other site 1048260001076 Helix-turn-helix domain; Region: HTH_17; pfam12728 1048260001077 Toprim domain; Region: Toprim_3; pfam13362 1048260001078 AAA domain; Region: AAA_25; pfam13481 1048260001079 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 1048260001080 Walker A motif; other site 1048260001081 ATP binding site [chemical binding]; other site 1048260001082 Walker B motif; other site 1048260001083 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260001084 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 1048260001085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 1048260001086 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 1048260001087 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1048260001088 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1048260001089 active site 1048260001090 dimer interface [polypeptide binding]; other site 1048260001091 effector binding site; other site 1048260001092 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1048260001093 TSCPD domain; Region: TSCPD; cl14834 1048260001094 Rubrerythrin [Energy production and conversion]; Region: COG1592 1048260001095 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1048260001096 binuclear metal center [ion binding]; other site 1048260001097 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1048260001098 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1048260001099 homodimer interface [polypeptide binding]; other site 1048260001100 substrate-cofactor binding pocket; other site 1048260001101 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1048260001102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260001103 catalytic residue [active] 1048260001104 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1048260001105 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1048260001106 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1048260001107 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260001108 Zn2+ binding site [ion binding]; other site 1048260001109 Mg2+ binding site [ion binding]; other site 1048260001110 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1048260001111 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1048260001112 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1048260001113 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1048260001114 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 1048260001115 Ligand Binding Site [chemical binding]; other site 1048260001116 TIGR00269 family protein; Region: TIGR00269 1048260001117 Ubiquitin-like proteins; Region: UBQ; cl00155 1048260001118 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1048260001119 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 1048260001120 Chlorite dismutase; Region: Chlor_dismutase; cl01280 1048260001121 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1048260001122 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 1048260001123 active site 1048260001124 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1048260001125 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1048260001126 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1048260001127 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 1048260001128 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 1048260001129 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1048260001130 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1048260001131 HIGH motif; other site 1048260001132 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1048260001133 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1048260001134 active site 1048260001135 KMSKS motif; other site 1048260001136 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1048260001137 tRNA binding surface [nucleotide binding]; other site 1048260001138 anticodon binding site; other site 1048260001139 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 1048260001140 metabolite-proton symporter; Region: 2A0106; TIGR00883 1048260001141 putative substrate translocation pore; other site 1048260001142 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1048260001143 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1048260001144 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 1048260001145 Walker A motif; other site 1048260001146 ATP binding site [chemical binding]; other site 1048260001147 Walker B motif; other site 1048260001148 arginine finger; other site 1048260001149 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1048260001150 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1048260001151 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1048260001152 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1048260001153 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1048260001154 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1048260001155 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1048260001156 Flagellin N-methylase; Region: FliB; cl00497 1048260001157 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1048260001158 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1048260001159 HflX GTPase family; Region: HflX; cd01878 1048260001160 G1 box; other site 1048260001161 GTP/Mg2+ binding site [chemical binding]; other site 1048260001162 Switch I region; other site 1048260001163 G2 box; other site 1048260001164 G3 box; other site 1048260001165 Switch II region; other site 1048260001166 G4 box; other site 1048260001167 G5 box; other site 1048260001168 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260001169 seryl-tRNA synthetase; Provisional; Region: PRK05431 1048260001170 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1048260001171 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1048260001172 dimer interface [polypeptide binding]; other site 1048260001173 active site 1048260001174 motif 1; other site 1048260001175 motif 2; other site 1048260001176 motif 3; other site 1048260001177 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1048260001178 substrate binding site [chemical binding]; other site 1048260001179 PAS domain S-box; Region: sensory_box; TIGR00229 1048260001180 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 1048260001181 putative active site [active] 1048260001182 heme pocket [chemical binding]; other site 1048260001183 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260001184 GAF domain; Region: GAF; pfam01590 1048260001185 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 1048260001186 PAS domain; Region: PAS_9; pfam13426 1048260001187 putative active site [active] 1048260001188 heme pocket [chemical binding]; other site 1048260001189 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001190 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001191 metal binding site [ion binding]; metal-binding site 1048260001192 active site 1048260001193 I-site; other site 1048260001194 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 1048260001195 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260001196 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1048260001197 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1048260001198 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1048260001199 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1048260001200 Protein of unknown function (DUF971); Region: DUF971; pfam06155 1048260001201 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1048260001202 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1048260001203 active site 1048260001204 Domain of unknown function DUF59; Region: DUF59; pfam01883 1048260001205 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1048260001206 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 1048260001207 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1048260001208 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1048260001209 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 1048260001210 catalytic loop [active] 1048260001211 iron binding site [ion binding]; other site 1048260001212 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1048260001213 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1048260001214 nucleotide binding site [chemical binding]; other site 1048260001215 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1048260001216 SBD interface [polypeptide binding]; other site 1048260001217 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 1048260001218 HSP70 interaction site [polypeptide binding]; other site 1048260001219 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1048260001220 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1048260001221 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1048260001222 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1048260001223 trimerization site [polypeptide binding]; other site 1048260001224 active site 1048260001225 cysteine desulfurase; Provisional; Region: PRK14012 1048260001226 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1048260001227 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260001228 catalytic residue [active] 1048260001229 Rrf2 family protein; Region: rrf2_super; TIGR00738 1048260001230 Transcriptional regulator; Region: Rrf2; pfam02082 1048260001231 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1048260001232 PLD-like domain; Region: PLDc_2; pfam13091 1048260001233 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1048260001234 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1048260001235 Domain of unknown function DUF21; Region: DUF21; pfam01595 1048260001236 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 1048260001237 Transporter associated domain; Region: CorC_HlyC; smart01091 1048260001238 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 1048260001239 L-aspartate oxidase; Provisional; Region: PRK06175 1048260001240 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1048260001241 Ferredoxin [Energy production and conversion]; Region: COG1146 1048260001242 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1048260001243 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 1048260001244 ATP-sulfurylase; Region: ATPS; cd00517 1048260001245 active site 1048260001246 HXXH motif; other site 1048260001247 flexible loop; other site 1048260001248 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 1048260001249 non-specific DNA binding site [nucleotide binding]; other site 1048260001250 salt bridge; other site 1048260001251 sequence-specific DNA binding site [nucleotide binding]; other site 1048260001252 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 1048260001253 non-specific DNA binding site [nucleotide binding]; other site 1048260001254 salt bridge; other site 1048260001255 sequence-specific DNA binding site [nucleotide binding]; other site 1048260001256 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 1048260001257 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1048260001258 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1048260001259 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 1048260001260 FeS/SAM binding site; other site 1048260001261 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1048260001262 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 1048260001263 putative substrate translocation pore; other site 1048260001264 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1048260001265 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 1048260001266 active site 1048260001267 DNA binding site [nucleotide binding] 1048260001268 Int/Topo IB signature motif; other site 1048260001269 Fic family protein [Function unknown]; Region: COG3177 1048260001270 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1048260001271 Fic/DOC family; Region: Fic; pfam02661 1048260001272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260001273 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260001274 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260001275 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260001276 MULE transposase domain; Region: MULE; pfam10551 1048260001277 AAA ATPase domain; Region: AAA_15; pfam13175 1048260001278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260001279 Walker B; other site 1048260001280 D-loop; other site 1048260001281 H-loop/switch region; other site 1048260001282 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; cd00188 1048260001283 active site 1048260001284 metal binding site [ion binding]; metal-binding site 1048260001285 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 1048260001286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260001287 putative DNA binding site [nucleotide binding]; other site 1048260001288 putative Zn2+ binding site [ion binding]; other site 1048260001289 Integrase core domain; Region: rve; pfam00665 1048260001290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260001291 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1048260001292 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1048260001293 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 1048260001294 Walker A motif; other site 1048260001295 ATP binding site [chemical binding]; other site 1048260001296 Endodeoxyribonuclease RusA; Region: RusA; cl01885 1048260001297 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1048260001298 Carboxylesterase family; Region: COesterase; pfam00135 1048260001299 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1048260001300 Restriction endonuclease; Region: Mrr_cat; pfam04471 1048260001301 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1048260001302 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1048260001303 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1048260001304 Abortive infection C-terminus; Region: Abi_C; pfam14355 1048260001305 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1048260001306 Protein of unknown function DUF262; Region: DUF262; pfam03235 1048260001307 Protein of unknown function DUF262; Region: DUF262; pfam03235 1048260001308 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1048260001309 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1048260001310 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260001311 MULE transposase domain; Region: MULE; pfam10551 1048260001312 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 1048260001313 PAS domain; Region: PAS_9; pfam13426 1048260001314 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1048260001315 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 1048260001316 Walker A motif; other site 1048260001317 ATP binding site [chemical binding]; other site 1048260001318 Walker B motif; other site 1048260001319 arginine finger; other site 1048260001320 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260001321 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1048260001322 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1048260001323 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1048260001324 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1048260001325 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1048260001326 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1048260001327 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1048260001328 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 1048260001329 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260001330 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260001331 putative active site [active] 1048260001332 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1048260001333 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 1048260001334 active site 1048260001335 phosphorylation site [posttranslational modification] 1048260001336 intermolecular recognition site; other site 1048260001337 dimerization interface [polypeptide binding]; other site 1048260001338 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 1048260001339 DNA binding residues [nucleotide binding] 1048260001340 dimerization interface [polypeptide binding]; other site 1048260001341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048260001342 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 1048260001343 dimer interface [polypeptide binding]; other site 1048260001344 phosphorylation site [posttranslational modification] 1048260001345 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 1048260001346 ATP binding site [chemical binding]; other site 1048260001347 Mg2+ binding site [ion binding]; other site 1048260001348 G-X-G motif; other site 1048260001349 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1048260001350 hypothetical protein; Provisional; Region: PHA02764 1048260001351 Universal stress protein family; Region: Usp; pfam00582 1048260001352 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1048260001353 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 1048260001354 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1048260001355 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1048260001356 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048260001357 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1048260001358 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1048260001359 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 1048260001360 Ligand Binding Site [chemical binding]; other site 1048260001361 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1048260001362 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1048260001363 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1048260001364 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1048260001365 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 1048260001366 catalytic triad [active] 1048260001367 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1048260001368 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1048260001369 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 1048260001370 Cysteine-rich domain; Region: CCG; pfam02754 1048260001371 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 1048260001372 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 1048260001373 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1048260001374 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260001375 catalytic residue [active] 1048260001376 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1048260001377 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1048260001378 putative NAD(P) binding site [chemical binding]; other site 1048260001379 active site 1048260001380 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1048260001381 metal binding site [ion binding]; metal-binding site 1048260001382 Toprim domain; Region: Toprim_3; pfam13362 1048260001383 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 1048260001384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260001385 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260001386 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260001387 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260001388 MULE transposase domain; Region: MULE; pfam10551 1048260001389 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260001390 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260001391 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260001392 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 1048260001393 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1048260001394 Walker A motif; other site 1048260001395 ATP binding site [chemical binding]; other site 1048260001396 Walker B motif; other site 1048260001397 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1048260001398 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 1048260001399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260001400 putative DNA binding site [nucleotide binding]; other site 1048260001401 putative Zn2+ binding site [ion binding]; other site 1048260001402 Integrase core domain; Region: rve; pfam00665 1048260001403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260001404 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1048260001405 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1048260001406 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 1048260001407 Walker A motif; other site 1048260001408 ATP binding site [chemical binding]; other site 1048260001409 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1048260001410 AAA domain; Region: AAA_30; pfam13604 1048260001411 Family description; Region: UvrD_C_2; pfam13538 1048260001412 DNA helicase TraI; Region: TraI; pfam07057 1048260001413 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 1048260001414 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 1048260001415 integrase; Provisional; Region: int; PHA02601 1048260001416 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 1048260001417 active site 1048260001418 DNA binding site [nucleotide binding] 1048260001419 Int/Topo IB signature motif; other site 1048260001420 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 1048260001421 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1048260001422 GSH binding site [chemical binding]; other site 1048260001423 catalytic residues [active] 1048260001424 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 1048260001425 Walker A motif; other site 1048260001426 ATP binding site [chemical binding]; other site 1048260001427 Walker B motif; other site 1048260001428 arginine finger; other site 1048260001429 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1048260001430 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1048260001431 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1048260001432 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1048260001433 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1048260001434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001436 metal binding site [ion binding]; metal-binding site 1048260001437 active site 1048260001438 I-site; other site 1048260001439 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 1048260001440 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1048260001441 Winged helix-turn helix; Region: HTH_29; pfam13551 1048260001442 DNA-binding interface [nucleotide binding]; DNA binding site 1048260001443 Toprim domain; Region: Toprim_3; pfam13362 1048260001444 TrwC relaxase; Region: TrwC; pfam08751 1048260001445 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1048260001446 AAA domain; Region: AAA_30; pfam13604 1048260001447 Family description; Region: UvrD_C_2; pfam13538 1048260001448 ORF6N domain; Region: ORF6N; pfam10543 1048260001449 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1048260001450 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1048260001451 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1048260001452 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260001453 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1048260001454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048260001455 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048260001456 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048260001457 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 1048260001458 putative substrate translocation pore; other site 1048260001459 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 1048260001460 dimerization interface [polypeptide binding]; other site 1048260001461 putative DNA binding site [nucleotide binding]; other site 1048260001462 putative Zn2+ binding site [ion binding]; other site 1048260001463 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1048260001464 OsmC-like protein; Region: OsmC; pfam02566 1048260001465 OsmC-like protein; Region: OsmC; pfam02566 1048260001466 Cytochrome C biogenesis protein; Region: CcmH; cl01179 1048260001467 Short C-terminal domain; Region: SHOCT; pfam09851 1048260001468 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1048260001469 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1048260001470 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260001471 catalytic residue [active] 1048260001472 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 1048260001473 MerT mercuric transport protein; Region: MerT; cl03578 1048260001474 tetrahydromethanopterin S-methyltransferase subunit A; Provisional; Region: PRK00964 1048260001475 Tetrahydromethanopterin S-methyltransferase, subunit A; Region: MtrA; cl04449 1048260001476 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 1048260001477 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1048260001478 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1048260001479 Protein export membrane protein; Region: SecD_SecF; cl14618 1048260001480 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260001481 Outer membrane efflux protein; Region: OEP; pfam02321 1048260001482 Outer membrane efflux protein; Region: OEP; pfam02321 1048260001483 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 1048260001484 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 1048260001485 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1048260001486 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 1048260001487 active site 1048260001488 DNA binding site [nucleotide binding] 1048260001489 Int/Topo IB signature motif; other site 1048260001490 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1048260001491 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1048260001492 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1048260001493 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1048260001494 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 1048260001495 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 1048260001496 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1048260001497 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1048260001498 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1048260001499 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1048260001500 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1048260001501 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1048260001502 Phage terminase large subunit; Region: Terminase_3; cl12054 1048260001503 Terminase-like family; Region: Terminase_6; pfam03237 1048260001504 Terminase small subunit; Region: Terminase_2; pfam03592 1048260001505 AAA domain; Region: AAA_30; pfam13604 1048260001506 Family description; Region: UvrD_C_2; pfam13538 1048260001507 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 1048260001508 polymerase nucleotide-binding site; other site 1048260001509 DNA-binding residues [nucleotide binding]; DNA binding site 1048260001510 nucleotide binding site [chemical binding]; other site 1048260001511 primase nucleotide-binding site [nucleotide binding]; other site 1048260001512 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 1048260001513 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1048260001514 Predicted transcriptional regulator [Transcription]; Region: COG2932 1048260001515 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 1048260001516 Catalytic site [active] 1048260001517 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 1048260001518 AAA domain; Region: AAA_24; pfam13479 1048260001519 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 1048260001520 Protein of unknown function (DUF669); Region: DUF669; pfam05037 1048260001521 HNH endonuclease; Region: HNH_3; pfam13392 1048260001522 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1048260001523 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1048260001524 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 1048260001525 ATP binding site [chemical binding]; other site 1048260001526 putative Mg++ binding site [ion binding]; other site 1048260001527 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 1048260001528 nucleotide binding region [chemical binding]; other site 1048260001529 ATP-binding site [chemical binding]; other site 1048260001530 Double zinc ribbon; Region: DZR; pfam12773 1048260001531 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1048260001532 FaeA-like protein; Region: FaeA; pfam04703 1048260001533 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 1048260001534 non-specific DNA binding site [nucleotide binding]; other site 1048260001535 salt bridge; other site 1048260001536 sequence-specific DNA binding site [nucleotide binding]; other site 1048260001537 HNH endonuclease; Region: HNH_3; pfam13392 1048260001538 integrase; Provisional; Region: int; PHA02601 1048260001539 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 1048260001540 active site 1048260001541 DNA binding site [nucleotide binding] 1048260001542 Int/Topo IB signature motif; other site 1048260001543 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1048260001544 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1048260001545 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1048260001546 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 1048260001547 substrate binding site [chemical binding]; other site 1048260001548 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1048260001549 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1048260001550 substrate binding site [chemical binding]; other site 1048260001551 ligand binding site [chemical binding]; other site 1048260001552 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1048260001553 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1048260001554 NAD binding site [chemical binding]; other site 1048260001555 substrate binding site [chemical binding]; other site 1048260001556 homodimer interface [polypeptide binding]; other site 1048260001557 active site 1048260001558 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1048260001559 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1048260001560 substrate binding site; other site 1048260001561 tetramer interface; other site 1048260001562 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1048260001563 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 1048260001564 metabolite-proton symporter; Region: 2A0106; TIGR00883 1048260001565 putative substrate translocation pore; other site 1048260001566 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1048260001567 Sel1-like repeats; Region: SEL1; smart00671 1048260001568 Sel1-like repeats; Region: SEL1; smart00671 1048260001569 Sel1-like repeats; Region: SEL1; smart00671 1048260001570 Sel1 repeat; Region: Sel1; cl02723 1048260001571 PAS domain S-box; Region: sensory_box; TIGR00229 1048260001572 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 1048260001573 putative active site [active] 1048260001574 heme pocket [chemical binding]; other site 1048260001575 GAF domain; Region: GAF_2; pfam13185 1048260001576 GAF domain; Region: GAF; pfam01590 1048260001577 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 1048260001578 PAS domain; Region: PAS_9; pfam13426 1048260001579 putative active site [active] 1048260001580 heme pocket [chemical binding]; other site 1048260001581 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001583 metal binding site [ion binding]; metal-binding site 1048260001584 active site 1048260001585 I-site; other site 1048260001586 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 1048260001587 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 1048260001588 catalytic core [active] 1048260001589 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 1048260001590 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1048260001591 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260001592 catalytic residue [active] 1048260001593 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1048260001594 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1048260001595 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1048260001596 catalytic site [active] 1048260001597 active site 1048260001598 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1048260001599 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1048260001600 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048260001601 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1048260001602 active site 1048260001603 catalytic site [active] 1048260001604 trehalose synthase; Region: treS_nterm; TIGR02456 1048260001605 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048260001606 active site 1048260001607 catalytic site [active] 1048260001608 trehalose synthase; Region: treS_nterm; TIGR02456 1048260001609 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1048260001610 active site 1048260001611 catalytic site [active] 1048260001612 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 1048260001613 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1048260001614 putative di-iron ligands [ion binding]; other site 1048260001615 GAF domain; Region: GAF; cl17456 1048260001616 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001618 metal binding site [ion binding]; metal-binding site 1048260001619 active site 1048260001620 I-site; other site 1048260001621 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001622 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001623 metal binding site [ion binding]; metal-binding site 1048260001624 active site 1048260001625 I-site; other site 1048260001626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001627 metal binding site [ion binding]; metal-binding site 1048260001628 active site 1048260001629 I-site; other site 1048260001630 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1048260001631 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1048260001632 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1048260001633 active site 1048260001634 homodimer interface [polypeptide binding]; other site 1048260001635 catalytic site [active] 1048260001636 acceptor binding site [chemical binding]; other site 1048260001637 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1048260001638 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1048260001639 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1048260001640 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1048260001641 putative NAD(P) binding site [chemical binding]; other site 1048260001642 putative substrate binding site [chemical binding]; other site 1048260001643 catalytic Zn binding site [ion binding]; other site 1048260001644 structural Zn binding site [ion binding]; other site 1048260001645 dimer interface [polypeptide binding]; other site 1048260001646 Domain of unknown function (DUF202); Region: DUF202; cl09954 1048260001647 PAS domain S-box; Region: sensory_box; TIGR00229 1048260001648 PAS domain S-box; Region: sensory_box; TIGR00229 1048260001649 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 1048260001650 putative active site [active] 1048260001651 heme pocket [chemical binding]; other site 1048260001652 PAS domain S-box; Region: sensory_box; TIGR00229 1048260001653 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 1048260001654 PAS domain; Region: PAS_9; pfam13426 1048260001655 putative active site [active] 1048260001656 heme pocket [chemical binding]; other site 1048260001657 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001658 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001659 metal binding site [ion binding]; metal-binding site 1048260001660 active site 1048260001661 I-site; other site 1048260001662 enoyl-CoA hydratase; Validated; Region: PRK08788 1048260001663 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 1048260001664 substrate binding site [chemical binding]; other site 1048260001665 oxyanion hole (OAH) forming residues; other site 1048260001666 trimer interface [polypeptide binding]; other site 1048260001667 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048260001668 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 1048260001669 dimer interface [polypeptide binding]; other site 1048260001670 phosphorylation site [posttranslational modification] 1048260001671 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 1048260001672 ATP binding site [chemical binding]; other site 1048260001673 Mg2+ binding site [ion binding]; other site 1048260001674 G-X-G motif; other site 1048260001675 Response regulator receiver domain; Region: Response_reg; pfam00072 1048260001676 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 1048260001677 active site 1048260001678 phosphorylation site [posttranslational modification] 1048260001679 intermolecular recognition site; other site 1048260001680 dimerization interface [polypeptide binding]; other site 1048260001681 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1048260001682 putative binding surface; other site 1048260001683 active site 1048260001684 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1048260001685 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 1048260001686 active site 1048260001687 phosphorylation site [posttranslational modification] 1048260001688 intermolecular recognition site; other site 1048260001689 dimerization interface [polypeptide binding]; other site 1048260001690 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260001691 Zn2+ binding site [ion binding]; other site 1048260001692 Mg2+ binding site [ion binding]; other site 1048260001693 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1048260001694 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1048260001695 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 1048260001696 binding surface 1048260001697 TPR motif; other site 1048260001698 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 1048260001699 TPR motif; other site 1048260001700 binding surface 1048260001701 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 1048260001702 TPR motif; other site 1048260001703 binding surface 1048260001704 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 1048260001705 TPR motif; other site 1048260001706 binding surface 1048260001707 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1048260001708 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1048260001709 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1048260001710 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048260001711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260001712 Walker A/P-loop; other site 1048260001713 ATP binding site [chemical binding]; other site 1048260001714 Q-loop/lid; other site 1048260001715 ABC transporter signature motif; other site 1048260001716 Walker B; other site 1048260001717 D-loop; other site 1048260001718 H-loop/switch region; other site 1048260001719 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1048260001720 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1048260001721 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 1048260001722 active site 1048260001723 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1048260001724 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 1048260001725 active site 1048260001726 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048260001727 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 1048260001728 active site 1048260001729 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1048260001730 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 1048260001731 active site 1048260001732 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 1048260001733 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1048260001734 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 1048260001735 active site 1048260001736 phosphorylation site [posttranslational modification] 1048260001737 intermolecular recognition site; other site 1048260001738 dimerization interface [polypeptide binding]; other site 1048260001739 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 1048260001740 Walker A motif; other site 1048260001741 ATP binding site [chemical binding]; other site 1048260001742 Walker B motif; other site 1048260001743 arginine finger; other site 1048260001744 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260001745 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 1048260001746 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1048260001747 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1048260001748 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1048260001749 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1048260001750 active site 1048260001751 tetramer interface; other site 1048260001752 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 1048260001753 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 1048260001754 ATP binding site [chemical binding]; other site 1048260001755 Mg2+ binding site [ion binding]; other site 1048260001756 G-X-G motif; other site 1048260001757 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1048260001758 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 1048260001759 Probable Catalytic site; other site 1048260001760 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048260001761 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 1048260001762 active site 1048260001763 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1048260001764 O-Antigen ligase; Region: Wzy_C; pfam04932 1048260001765 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1048260001766 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1048260001767 putative ADP-binding pocket [chemical binding]; other site 1048260001768 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260001769 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1048260001770 putative ADP-binding pocket [chemical binding]; other site 1048260001771 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1048260001772 putative active site [active] 1048260001773 putative metal binding site [ion binding]; other site 1048260001774 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1048260001775 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260001776 putative ADP-binding pocket [chemical binding]; other site 1048260001777 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 1048260001778 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1048260001779 DXD motif; other site 1048260001780 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1048260001781 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1048260001782 putative active site [active] 1048260001783 putative metal binding site [ion binding]; other site 1048260001784 Uncharacterized conserved protein [Function unknown]; Region: COG3379 1048260001785 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1048260001786 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1048260001787 SLBB domain; Region: SLBB; pfam10531 1048260001788 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1048260001789 SLBB domain; Region: SLBB; pfam10531 1048260001790 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 1048260001791 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1048260001792 Chain length determinant protein; Region: Wzz; cl15801 1048260001793 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1048260001794 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1048260001795 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 1048260001796 putative mercuric reductase; Provisional; Region: PRK13748 1048260001797 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 1048260001798 metal-binding site [ion binding] 1048260001799 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1048260001800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048260001801 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048260001802 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1048260001803 DNA binding residues [nucleotide binding] 1048260001804 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1048260001805 dimer interface [polypeptide binding]; other site 1048260001806 metal binding site [ion binding]; metal-binding site 1048260001807 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1048260001808 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1048260001809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001811 metal binding site [ion binding]; metal-binding site 1048260001812 active site 1048260001813 I-site; other site 1048260001814 HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional...; Region: HECTc; cl00077 1048260001815 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1048260001816 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1048260001817 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1048260001818 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1048260001819 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1048260001820 UDP-galactopyranose mutase; Region: GLF; pfam03275 1048260001821 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1048260001822 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1048260001823 putative NAD(P) binding site [chemical binding]; other site 1048260001824 active site 1048260001825 putative substrate binding site [chemical binding]; other site 1048260001826 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1048260001827 cyclase homology domain; Region: CHD; cd07302 1048260001828 dimer interface [polypeptide binding]; other site 1048260001829 metal binding site [ion binding]; metal-binding site 1048260001830 AAA ATPase domain; Region: AAA_16; pfam13191 1048260001831 PilZ domain; Region: PilZ; pfam07238 1048260001832 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1048260001833 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 1048260001834 Walker A motif; other site 1048260001835 ATP binding site [chemical binding]; other site 1048260001836 Walker B motif; other site 1048260001837 arginine finger; other site 1048260001838 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260001839 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1048260001840 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1048260001841 glutaminase active site [active] 1048260001842 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 1048260001843 dimer interface [polypeptide binding]; other site 1048260001844 active site 1048260001845 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1048260001846 dimer interface [polypeptide binding]; other site 1048260001847 active site 1048260001848 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1048260001849 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1048260001850 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1048260001851 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1048260001852 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1048260001853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260001854 NAD(P) binding site [chemical binding]; other site 1048260001855 active site 1048260001856 PilZ domain; Region: PilZ; pfam07238 1048260001857 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1048260001858 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 1048260001859 Walker A motif; other site 1048260001860 ATP binding site [chemical binding]; other site 1048260001861 Walker B motif; other site 1048260001862 arginine finger; other site 1048260001863 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260001864 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1048260001865 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1048260001866 active site 1048260001867 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260001868 GAF domain; Region: GAF; pfam01590 1048260001869 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 1048260001870 PAS domain; Region: PAS_9; pfam13426 1048260001871 putative active site [active] 1048260001872 heme pocket [chemical binding]; other site 1048260001873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260001874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260001875 metal binding site [ion binding]; metal-binding site 1048260001876 active site 1048260001877 I-site; other site 1048260001878 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 1048260001879 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 1048260001880 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1048260001881 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 1048260001882 CoA binding domain; Region: CoA_binding; smart00881 1048260001883 CoA-ligase; Region: Ligase_CoA; pfam00549 1048260001884 aconitate hydratase; Validated; Region: PRK07229 1048260001885 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 1048260001886 substrate binding site [chemical binding]; other site 1048260001887 ligand binding site [chemical binding]; other site 1048260001888 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 1048260001889 substrate binding site [chemical binding]; other site 1048260001890 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1048260001891 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. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1048260001892 active site 1048260001893 oxalacetate binding site [chemical binding]; other site 1048260001894 citrylCoA binding site [chemical binding]; other site 1048260001895 coenzyme A binding site [chemical binding]; other site 1048260001896 catalytic triad [active] 1048260001897 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 1048260001898 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 1048260001899 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1048260001900 L-aspartate oxidase; Provisional; Region: PRK06175 1048260001901 FAD binding domain; Region: FAD_binding_2; pfam00890 1048260001902 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1048260001903 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1048260001904 CoA-ligase; Region: Ligase_CoA; pfam00549 1048260001905 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1048260001906 CoA binding domain; Region: CoA_binding; smart00881 1048260001907 CoA-ligase; Region: Ligase_CoA; pfam00549 1048260001908 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 1048260001909 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1048260001910 dimer interface [polypeptide binding]; other site 1048260001911 catalytic triad [active] 1048260001912 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1048260001913 MraZ protein; Region: MraZ; pfam02381 1048260001914 cell division protein MraZ; Reviewed; Region: PRK00326 1048260001915 MraZ protein; Region: MraZ; pfam02381 1048260001916 MraW methylase family; Region: Methyltransf_5; cl17771 1048260001917 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1048260001918 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1048260001919 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1048260001920 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1048260001921 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1048260001922 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1048260001923 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048260001924 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048260001925 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1048260001926 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048260001927 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048260001928 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1048260001929 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 1048260001930 Mg++ binding site [ion binding]; other site 1048260001931 putative catalytic motif [active] 1048260001932 putative substrate binding site [chemical binding]; other site 1048260001933 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1048260001934 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; cd01983 1048260001935 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048260001936 cell division protein FtsW; Region: ftsW; TIGR02614 1048260001937 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 1048260001938 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 1048260001939 homodimer interface [polypeptide binding]; other site 1048260001940 active site 1048260001941 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1048260001942 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1048260001943 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048260001944 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048260001945 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1048260001946 FAD binding domain; Region: FAD_binding_4; pfam01565 1048260001947 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1048260001948 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1048260001949 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1048260001950 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1048260001951 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1048260001952 Cell division protein FtsA; Region: FtsA; smart00842 1048260001953 Cell division protein FtsA; Region: FtsA; pfam14450 1048260001954 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 1048260001955 nucleotide binding site [chemical binding]; other site 1048260001956 cell division protein FtsZ; Validated; Region: PRK09330 1048260001957 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 1048260001958 SulA interaction site; other site 1048260001959 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1048260001960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1048260001961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1048260001962 catalytic residue [active] 1048260001963 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1048260001964 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1048260001965 YGGT family; Region: YGGT; pfam02325 1048260001966 DivIVA domain; Region: DivI1A_domain; TIGR03544 1048260001967 DivIVA protein; Region: DivIVA; pfam05103 1048260001968 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 1048260001969 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1048260001970 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 1048260001971 Active site cavity [active] 1048260001972 catalytic acid [active] 1048260001973 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048260001974 Surface antigen; Region: Bac_surface_Ag; pfam01103 1048260001975 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1048260001976 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1048260001977 putative NADP binding site [chemical binding]; other site 1048260001978 putative substrate binding site [chemical binding]; other site 1048260001979 active site 1048260001980 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1048260001981 LytB protein; Region: LYTB; pfam02401 1048260001982 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 1048260001983 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 1048260001984 B12 binding site [chemical binding]; other site 1048260001985 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 1048260001986 FeS/SAM binding site; other site 1048260001987 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 1048260001988 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1048260001989 ligand binding site; other site 1048260001990 EamA-like transporter family; Region: EamA; cl17759 1048260001991 Protein of unknown function (DUF422); Region: DUF422; cl00991 1048260001992 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1048260001993 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1048260001994 putative active site [active] 1048260001995 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 1048260001996 putative active site [active] 1048260001997 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1048260001998 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 1048260001999 substrate binding site [chemical binding]; other site 1048260002000 active site 1048260002001 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1048260002002 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 1048260002003 FeS/SAM binding site; other site 1048260002004 HemN C-terminal domain; Region: HemN_C; pfam06969 1048260002005 Terminase small subunit; Region: Terminase_2; cl01513 1048260002006 AAA domain; Region: AAA_25; pfam13481 1048260002007 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 1048260002008 Walker A motif; other site 1048260002009 ATP binding site [chemical binding]; other site 1048260002010 Walker B motif; other site 1048260002011 YcfA-like protein; Region: YcfA; cl00752 1048260002012 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1048260002013 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 1048260002014 active site 1048260002015 DNA binding site [nucleotide binding] 1048260002016 Int/Topo IB signature motif; other site 1048260002017 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1048260002018 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1048260002019 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1048260002020 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1048260002021 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1048260002022 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1048260002023 homotetramer interface [polypeptide binding]; other site 1048260002024 ligand binding site [chemical binding]; other site 1048260002025 catalytic site [active] 1048260002026 NAD binding site [chemical binding]; other site 1048260002027 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1048260002028 thiS-thiF/thiG interaction site; other site 1048260002029 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1048260002030 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 1048260002031 dimer interface [polypeptide binding]; other site 1048260002032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260002033 catalytic residue [active] 1048260002034 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1048260002035 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 1048260002036 ATP binding site [chemical binding]; other site 1048260002037 substrate interface [chemical binding]; other site 1048260002038 threonine synthase; Validated; Region: PRK07591 1048260002039 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1048260002040 homodimer interface [polypeptide binding]; other site 1048260002041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260002042 catalytic residue [active] 1048260002043 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1048260002044 MoaE interaction surface [polypeptide binding]; other site 1048260002045 MoeB interaction surface [polypeptide binding]; other site 1048260002046 thiocarboxylated glycine; other site 1048260002047 NIL domain; Region: NIL; pfam09383 1048260002048 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1048260002049 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 1048260002050 ATP binding site [chemical binding]; other site 1048260002051 substrate interface [chemical binding]; other site 1048260002052 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 1048260002053 MPN+ (JAMM) motif; other site 1048260002054 Zinc-binding site [ion binding]; other site 1048260002055 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048260002056 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 1048260002057 active site 1048260002058 phosphorylation site [posttranslational modification] 1048260002059 intermolecular recognition site; other site 1048260002060 dimerization interface [polypeptide binding]; other site 1048260002061 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 1048260002062 DNA binding site [nucleotide binding] 1048260002063 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1048260002064 PAS domain; Region: PAS_8; pfam13188 1048260002065 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 1048260002066 dimer interface [polypeptide binding]; other site 1048260002067 phosphorylation site [posttranslational modification] 1048260002068 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 1048260002069 ATP binding site [chemical binding]; other site 1048260002070 Mg2+ binding site [ion binding]; other site 1048260002071 G-X-G motif; other site 1048260002072 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1048260002073 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1048260002074 NAD binding site [chemical binding]; other site 1048260002075 homodimer interface [polypeptide binding]; other site 1048260002076 active site 1048260002077 substrate binding site [chemical binding]; other site 1048260002078 endonuclease IV; Provisional; Region: PRK01060 1048260002079 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1048260002080 AP (apurinic/apyrimidinic) site pocket; other site 1048260002081 DNA interaction; other site 1048260002082 Metal-binding active site; metal-binding site 1048260002083 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1048260002084 Permease; Region: Permease; pfam02405 1048260002085 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1048260002086 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1048260002087 Walker A/P-loop; other site 1048260002088 ATP binding site [chemical binding]; other site 1048260002089 Q-loop/lid; other site 1048260002090 ABC transporter signature motif; other site 1048260002091 Walker B; other site 1048260002092 D-loop; other site 1048260002093 H-loop/switch region; other site 1048260002094 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1048260002095 mce related protein; Region: MCE; pfam02470 1048260002096 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1048260002097 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048260002098 putative active site [active] 1048260002099 putative metal binding site [ion binding]; other site 1048260002100 PAS domain S-box; Region: sensory_box; TIGR00229 1048260002101 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 1048260002102 PAS domain; Region: PAS_9; pfam13426 1048260002103 putative active site [active] 1048260002104 heme pocket [chemical binding]; other site 1048260002105 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260002106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260002107 metal binding site [ion binding]; metal-binding site 1048260002108 active site 1048260002109 I-site; other site 1048260002110 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 1048260002111 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1048260002112 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1048260002113 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1048260002114 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1048260002115 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1048260002116 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1048260002117 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1048260002118 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1048260002119 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1048260002120 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1048260002121 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1048260002122 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1048260002123 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1048260002124 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1048260002125 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1048260002126 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1048260002127 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1048260002128 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1048260002129 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1048260002130 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 1048260002131 S-adenosylmethionine binding site [chemical binding]; other site 1048260002132 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1048260002133 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1048260002134 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1048260002135 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 1048260002136 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1048260002137 catalytic residue [active] 1048260002138 AAA domain; Region: AAA_32; pfam13654 1048260002139 recombination factor protein RarA; Reviewed; Region: PRK13342 1048260002140 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 1048260002141 Walker A motif; other site 1048260002142 ATP binding site [chemical binding]; other site 1048260002143 Walker B motif; other site 1048260002144 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1048260002145 phosphodiesterase; Provisional; Region: PRK12704 1048260002146 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260002147 Zn2+ binding site [ion binding]; other site 1048260002148 Mg2+ binding site [ion binding]; other site 1048260002149 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1048260002150 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048260002151 putative active site [active] 1048260002152 metal binding site [ion binding]; metal-binding site 1048260002153 homodimer binding site [polypeptide binding]; other site 1048260002154 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1048260002155 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 1048260002156 generic binding surface I; other site 1048260002157 generic binding surface II; other site 1048260002158 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1048260002159 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1048260002160 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1048260002161 substrate binding pocket [chemical binding]; other site 1048260002162 chain length determination region; other site 1048260002163 substrate-Mg2+ binding site; other site 1048260002164 catalytic residues [active] 1048260002165 aspartate-rich region 1; other site 1048260002166 active site lid residues [active] 1048260002167 aspartate-rich region 2; other site 1048260002168 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1048260002169 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 1048260002170 TPP-binding site; other site 1048260002171 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 1048260002172 PYR/PP interface [polypeptide binding]; other site 1048260002173 dimer interface [polypeptide binding]; other site 1048260002174 TPP binding site [chemical binding]; other site 1048260002175 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048260002176 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1048260002177 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 1048260002178 RNA binding surface [nucleotide binding]; other site 1048260002179 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 1048260002180 S-adenosylmethionine binding site [chemical binding]; other site 1048260002181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260002182 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1048260002183 NAD(P) binding site [chemical binding]; other site 1048260002184 active site 1048260002185 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1048260002186 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1048260002187 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1048260002188 Peptidase family M23; Region: Peptidase_M23; pfam01551 1048260002189 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1048260002190 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1048260002191 SEC-C motif; Region: SEC-C; pfam02810 1048260002192 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1048260002193 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1048260002194 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1048260002195 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1048260002196 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1048260002197 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1048260002198 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1048260002199 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 1048260002200 putative dimer interface [polypeptide binding]; other site 1048260002201 [2Fe-2S] cluster binding site [ion binding]; other site 1048260002202 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1048260002203 dimer interface [polypeptide binding]; other site 1048260002204 [2Fe-2S] cluster binding site [ion binding]; other site 1048260002205 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1048260002206 SLBB domain; Region: SLBB; pfam10531 1048260002207 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1048260002208 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1048260002209 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1048260002210 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 1048260002211 catalytic loop [active] 1048260002212 iron binding site [ion binding]; other site 1048260002213 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1048260002214 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1048260002215 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 1048260002216 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 1048260002217 molybdopterin cofactor binding site; other site 1048260002218 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 1048260002219 molybdopterin cofactor binding site; other site 1048260002220 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1048260002221 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1048260002222 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1048260002223 4Fe-4S binding domain; Region: Fer4; cl02805 1048260002224 4Fe-4S binding domain; Region: Fer4; pfam00037 1048260002225 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1048260002226 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1048260002227 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1048260002228 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1048260002229 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1048260002230 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260002231 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 1048260002232 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1048260002233 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260002234 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1048260002235 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260002236 LexA repressor; Validated; Region: PRK00215 1048260002237 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1048260002238 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 1048260002239 Catalytic site [active] 1048260002240 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1048260002241 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1048260002242 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1048260002243 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1048260002244 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 1048260002245 ATP binding site [chemical binding]; other site 1048260002246 putative Mg++ binding site [ion binding]; other site 1048260002247 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 1048260002248 nucleotide binding region [chemical binding]; other site 1048260002249 ATP-binding site [chemical binding]; other site 1048260002250 Proline dehydrogenase; Region: Pro_dh; cl03282 1048260002251 Bacterial Fe(2+) trafficking; Region: Iron_traffic; pfam04362 1048260002252 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260002253 GAF domain; Region: GAF; pfam01590 1048260002254 PAS domain; Region: PAS_9; pfam13426 1048260002255 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 1048260002256 putative active site [active] 1048260002257 heme pocket [chemical binding]; other site 1048260002258 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 1048260002259 PAS domain; Region: PAS_9; pfam13426 1048260002260 putative active site [active] 1048260002261 heme pocket [chemical binding]; other site 1048260002262 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260002263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260002264 metal binding site [ion binding]; metal-binding site 1048260002265 active site 1048260002266 I-site; other site 1048260002267 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 1048260002268 CheW-like domain; Region: CheW; pfam01584 1048260002269 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 1048260002270 Protein of unknown function (DUF692); Region: DUF692; cl01263 1048260002271 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260002272 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260002273 metal binding site [ion binding]; metal-binding site 1048260002274 active site 1048260002275 I-site; other site 1048260002276 TPR repeat; Region: TPR_11; pfam13414 1048260002277 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 1048260002278 binding surface 1048260002279 TPR motif; other site 1048260002280 TPR repeat; Region: TPR_11; pfam13414 1048260002281 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 1048260002282 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260002283 TPR motif; other site 1048260002284 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1048260002285 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1048260002286 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 1048260002287 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1048260002288 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1048260002289 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1048260002290 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1048260002291 type II secretion system protein F; Region: GspF; TIGR02120 1048260002292 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1048260002293 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1048260002294 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1048260002295 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 1048260002296 Walker A motif; other site 1048260002297 ATP binding site [chemical binding]; other site 1048260002298 Walker B motif; other site 1048260002299 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1048260002300 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1048260002301 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1048260002302 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1048260002303 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 1048260002304 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1048260002305 thiS-thiF/thiG interaction site; other site 1048260002306 Cytochrome c [Energy production and conversion]; Region: COG3258 1048260002307 Cytochrome c; Region: Cytochrom_C; pfam00034 1048260002308 Cytochrome c [Energy production and conversion]; Region: COG3258 1048260002309 Cytochrome c; Region: Cytochrom_C; pfam00034 1048260002310 Cytochrome c; Region: Cytochrom_C; cl11414 1048260002311 Cytochrome c; Region: Cytochrom_C; cl11414 1048260002312 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260002313 GAF domain; Region: GAF; pfam01590 1048260002314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260002315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260002316 metal binding site [ion binding]; metal-binding site 1048260002317 active site 1048260002318 I-site; other site 1048260002319 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 1048260002320 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1048260002321 PEGA domain; Region: PEGA; pfam08308 1048260002322 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 1048260002323 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1048260002324 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 1048260002325 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 1048260002326 binding surface 1048260002327 TPR motif; other site 1048260002328 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 1048260002329 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 1048260002330 PilZ domain; Region: PilZ; pfam07238 1048260002331 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 1048260002332 Cytochrome c; Region: Cytochrom_C; cl11414 1048260002333 Cytochrome c; Region: Cytochrom_C; cl11414 1048260002334 Cytochrome c [Energy production and conversion]; Region: COG3258 1048260002335 Cytochrome c; Region: Cytochrom_C; pfam00034 1048260002336 DNA polymerase I; Reviewed; Region: PRK05761 1048260002337 DNA polymerase type-B B2 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no...; Region: POLBc_B2; cd05531 1048260002338 active site 1048260002339 metal-binding site 1048260002340 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 1048260002341 Walker B motif; other site 1048260002342 LexA repressor; Validated; Region: PRK00215 1048260002343 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1048260002344 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 1048260002345 Catalytic site [active] 1048260002346 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1048260002347 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 1048260002348 active site 1048260002349 dimer interface [polypeptide binding]; other site 1048260002350 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 1048260002351 dimer interface [polypeptide binding]; other site 1048260002352 active site 1048260002353 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1048260002354 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260002355 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 1048260002356 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1048260002357 Heavy-metal-associated domain; Region: HMA; pfam00403 1048260002358 metal-binding site [ion binding] 1048260002359 arsenical pump membrane protein; Provisional; Region: PRK15445 1048260002360 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1048260002361 transmembrane helices; other site 1048260002362 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 1048260002363 putative DNA binding site [nucleotide binding]; other site 1048260002364 putative Zn2+ binding site [ion binding]; other site 1048260002365 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1048260002366 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1048260002367 active site 1048260002368 Heavy-metal resistance; Region: Metal_resist; pfam13801 1048260002369 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1048260002370 Kelch domain; Region: Kelch; smart00612 1048260002371 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1048260002372 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1048260002373 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1048260002374 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1048260002375 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1048260002376 Iron permease FTR1 family; Region: FTR1; cl00475 1048260002377 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1048260002378 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1048260002379 Beta-Casp domain; Region: Beta-Casp; smart01027 1048260002380 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1048260002381 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1048260002382 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1048260002383 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1048260002384 acyl-activating enzyme (AAE) consensus motif; other site 1048260002385 acyl-activating enzyme (AAE) consensus motif; other site 1048260002386 putative AMP binding site [chemical binding]; other site 1048260002387 putative active site [active] 1048260002388 putative CoA binding site [chemical binding]; other site 1048260002389 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1048260002390 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1048260002391 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1048260002392 putative acyl-acceptor binding pocket; other site 1048260002393 Predicted membrane protein [Function unknown]; Region: COG2311 1048260002394 Transcriptional regulator; Region: Rrf2; cl17282 1048260002395 Rrf2 family protein; Region: rrf2_super; TIGR00738 1048260002396 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 1048260002397 FAD binding pocket [chemical binding]; other site 1048260002398 conserved FAD binding motif [chemical binding]; other site 1048260002399 phosphate binding motif [ion binding]; other site 1048260002400 beta-alpha-beta structure motif; other site 1048260002401 NAD binding pocket [chemical binding]; other site 1048260002402 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1048260002403 Cytochrome c; Region: Cytochrom_C; pfam00034 1048260002404 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 1048260002405 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1048260002406 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1048260002407 heme-binding site [chemical binding]; other site 1048260002408 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1048260002409 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 1048260002410 active site 1048260002411 substrate binding site [chemical binding]; other site 1048260002412 metal binding site [ion binding]; metal-binding site 1048260002413 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1048260002414 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1048260002415 Substrate binding site; other site 1048260002416 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1048260002417 short chain dehydrogenase; Provisional; Region: PRK07024 1048260002418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260002419 NAD(P) binding site [chemical binding]; other site 1048260002420 active site 1048260002421 GTPase Era; Reviewed; Region: era; PRK00089 1048260002422 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1048260002423 G1 box; other site 1048260002424 GTP/Mg2+ binding site [chemical binding]; other site 1048260002425 Switch I region; other site 1048260002426 G2 box; other site 1048260002427 Switch II region; other site 1048260002428 G3 box; other site 1048260002429 G4 box; other site 1048260002430 G5 box; other site 1048260002431 KH domain; Region: KH_2; pfam07650 1048260002432 G-X-X-G motif; other site 1048260002433 Recombination protein O N terminal; Region: RecO_N; pfam11967 1048260002434 Recombination protein O C terminal; Region: RecO_C; pfam02565 1048260002435 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 1048260002436 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1048260002437 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1048260002438 putative RNA binding site [nucleotide binding]; other site 1048260002439 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 1048260002440 S-adenosylmethionine binding site [chemical binding]; other site 1048260002441 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1048260002442 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1048260002443 G1 box; other site 1048260002444 putative GEF interaction site [polypeptide binding]; other site 1048260002445 GTP/Mg2+ binding site [chemical binding]; other site 1048260002446 Switch I region; other site 1048260002447 G2 box; other site 1048260002448 G3 box; other site 1048260002449 Switch II region; other site 1048260002450 G4 box; other site 1048260002451 G5 box; other site 1048260002452 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 1048260002453 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 1048260002454 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 1048260002455 active site 1048260002456 putative hydrolase; Provisional; Region: PRK02113 1048260002457 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1048260002458 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1048260002459 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1048260002460 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 1048260002461 substrate binding pocket [chemical binding]; other site 1048260002462 dimer interface [polypeptide binding]; other site 1048260002463 inhibitor binding site; inhibition site 1048260002464 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1048260002465 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 1048260002466 B12 binding site [chemical binding]; other site 1048260002467 cobalt ligand [ion binding]; other site 1048260002468 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1048260002469 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 1048260002470 ThiC family; Region: ThiC; pfam01964 1048260002471 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1048260002472 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 1048260002473 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1048260002474 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 1048260002475 Walker A motif; other site 1048260002476 ATP binding site [chemical binding]; other site 1048260002477 Walker B motif; other site 1048260002478 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1048260002479 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1048260002480 GIY-YIG motif/motif A; other site 1048260002481 active site 1048260002482 catalytic site [active] 1048260002483 putative DNA binding site [nucleotide binding]; other site 1048260002484 metal binding site [ion binding]; metal-binding site 1048260002485 UvrB/uvrC motif; Region: UVR; pfam02151 1048260002486 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1048260002487 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1048260002488 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1048260002489 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1048260002490 shikimate binding site; other site 1048260002491 NAD(P) binding site [chemical binding]; other site 1048260002492 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1048260002493 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1048260002494 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 1048260002495 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1048260002496 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1048260002497 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260002498 Zn2+ binding site [ion binding]; other site 1048260002499 Mg2+ binding site [ion binding]; other site 1048260002500 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1048260002501 PhoH-like protein; Region: PhoH; pfam02562 1048260002502 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 1048260002503 Ligand Binding Site [chemical binding]; other site 1048260002504 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 1048260002505 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1048260002506 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1048260002507 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1048260002508 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1048260002509 Thioredoxin; Region: Thioredoxin_4; pfam13462 1048260002510 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1048260002511 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1048260002512 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 1048260002513 active site 1048260002514 phosphorylation site [posttranslational modification] 1048260002515 intermolecular recognition site; other site 1048260002516 dimerization interface [polypeptide binding]; other site 1048260002517 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 1048260002518 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1048260002519 Sm and related proteins; Region: Sm_like; cl00259 1048260002520 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1048260002521 putative oligomer interface [polypeptide binding]; other site 1048260002522 putative RNA binding site [nucleotide binding]; other site 1048260002523 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1048260002524 NusA N-terminal domain; Region: NusA_N; pfam08529 1048260002525 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 1048260002526 RNA binding site [nucleotide binding]; other site 1048260002527 homodimer interface [polypeptide binding]; other site 1048260002528 NusA-like KH domain; Region: KH_5; pfam13184 1048260002529 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 1048260002530 G-X-X-G motif; other site 1048260002531 Y-family of DNA polymerases; Region: PolY; cl12025 1048260002532 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1048260002533 translation initiation factor IF-2; Region: IF-2; TIGR00487 1048260002534 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1048260002535 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1048260002536 G1 box; other site 1048260002537 putative GEF interaction site [polypeptide binding]; other site 1048260002538 GTP/Mg2+ binding site [chemical binding]; other site 1048260002539 Switch I region; other site 1048260002540 G2 box; other site 1048260002541 G3 box; other site 1048260002542 Switch II region; other site 1048260002543 G4 box; other site 1048260002544 G5 box; other site 1048260002545 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 1048260002546 Translation-initiation factor 2; Region: IF-2; pfam11987 1048260002547 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 1048260002548 Protein of unknown function (DUF503); Region: DUF503; pfam04456 1048260002549 Ribosome-binding factor A; Region: RBFA; pfam02033 1048260002550 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1048260002551 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1048260002552 RNA binding site [nucleotide binding]; other site 1048260002553 active site 1048260002554 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 1048260002555 16S/18S rRNA binding site [nucleotide binding]; other site 1048260002556 S13e-L30e interaction site [polypeptide binding]; other site 1048260002557 25S rRNA binding site [nucleotide binding]; other site 1048260002558 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1048260002559 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1048260002560 RNase E interface [polypeptide binding]; other site 1048260002561 trimer interface [polypeptide binding]; other site 1048260002562 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1048260002563 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1048260002564 RNase E interface [polypeptide binding]; other site 1048260002565 trimer interface [polypeptide binding]; other site 1048260002566 active site 1048260002567 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 1048260002568 putative nucleic acid binding region [nucleotide binding]; other site 1048260002569 G-X-X-G motif; other site 1048260002570 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 1048260002571 RNA binding site [nucleotide binding]; other site 1048260002572 domain interface; other site 1048260002573 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1048260002574 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1048260002575 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1048260002576 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 1048260002577 active site 1048260002578 hydrophilic channel; other site 1048260002579 dimerization interface [polypeptide binding]; other site 1048260002580 catalytic residues [active] 1048260002581 active site lid [active] 1048260002582 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1048260002583 putative carbohydrate kinase; Provisional; Region: PRK10565 1048260002584 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1048260002585 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 1048260002586 putative substrate binding site [chemical binding]; other site 1048260002587 putative ATP binding site [chemical binding]; other site 1048260002588 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1048260002589 Fe-S cluster binding site [ion binding]; other site 1048260002590 active site 1048260002591 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1048260002592 MutS domain I; Region: MutS_I; pfam01624 1048260002593 MutS domain III; Region: MutS_III; pfam05192 1048260002594 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1048260002595 Walker A/P-loop; other site 1048260002596 ATP binding site [chemical binding]; other site 1048260002597 Q-loop/lid; other site 1048260002598 ABC transporter signature motif; other site 1048260002599 Walker B; other site 1048260002600 D-loop; other site 1048260002601 H-loop/switch region; other site 1048260002602 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1048260002603 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1048260002604 NAD binding site [chemical binding]; other site 1048260002605 homotetramer interface [polypeptide binding]; other site 1048260002606 homodimer interface [polypeptide binding]; other site 1048260002607 substrate binding site [chemical binding]; other site 1048260002608 active site 1048260002609 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1048260002610 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 1048260002611 iron-sulfur cluster [ion binding]; other site 1048260002612 [2Fe-2S] cluster binding site [ion binding]; other site 1048260002613 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1048260002614 interchain domain interface [polypeptide binding]; other site 1048260002615 intrachain domain interface; other site 1048260002616 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 1048260002617 heme bH binding site [chemical binding]; other site 1048260002618 heme bL binding site [chemical binding]; other site 1048260002619 Qo binding site; other site 1048260002620 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 1048260002621 interchain domain interface [polypeptide binding]; other site 1048260002622 intrachain domain interface; other site 1048260002623 Qi binding site; other site 1048260002624 Qo binding site; other site 1048260002625 Cytochrome c; Region: Cytochrom_C; pfam00034 1048260002626 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1048260002627 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 1048260002628 homotrimer interaction site [polypeptide binding]; other site 1048260002629 putative active site [active] 1048260002630 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1048260002631 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 1048260002632 ssDNA binding site; other site 1048260002633 generic binding surface II; other site 1048260002634 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 1048260002635 ATP binding site [chemical binding]; other site 1048260002636 putative Mg++ binding site [ion binding]; other site 1048260002637 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 1048260002638 nucleotide binding region [chemical binding]; other site 1048260002639 ATP-binding site [chemical binding]; other site 1048260002640 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1048260002641 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1048260002642 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1048260002643 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 1048260002644 TPR motif; other site 1048260002645 binding surface 1048260002646 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 1048260002647 binding surface 1048260002648 TPR motif; other site 1048260002649 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260002650 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1048260002651 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1048260002652 active site 1048260002653 NTP binding site [chemical binding]; other site 1048260002654 metal binding triad [ion binding]; metal-binding site 1048260002655 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1048260002656 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1048260002657 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260002658 Protein export membrane protein; Region: SecD_SecF; cl14618 1048260002659 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1048260002660 metal binding site 2 [ion binding]; metal-binding site 1048260002661 putative DNA binding helix; other site 1048260002662 metal binding site 1 [ion binding]; metal-binding site 1048260002663 dimer interface [polypeptide binding]; other site 1048260002664 structural Zn2+ binding site [ion binding]; other site 1048260002665 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 1048260002666 Phospholipid methyltransferase; Region: PEMT; cl17370 1048260002667 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1048260002668 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 1048260002669 RNA binding site [nucleotide binding]; other site 1048260002670 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 1048260002671 RNA binding site [nucleotide binding]; other site 1048260002672 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 1048260002673 RNA binding site [nucleotide binding]; other site 1048260002674 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 1048260002675 RNA binding site [nucleotide binding]; other site 1048260002676 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1048260002677 RNA binding site [nucleotide binding]; other site 1048260002678 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; cd00164 1048260002679 RNA binding site [nucleotide binding]; other site 1048260002680 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1048260002681 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1048260002682 tandem repeat interface [polypeptide binding]; other site 1048260002683 oligomer interface [polypeptide binding]; other site 1048260002684 active site residues [active] 1048260002685 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 1048260002686 IHF dimer interface [polypeptide binding]; other site 1048260002687 IHF - DNA interface [nucleotide binding]; other site 1048260002688 signal recognition particle protein; Provisional; Region: PRK10867 1048260002689 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1048260002690 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 1048260002691 P loop; other site 1048260002692 GTP binding site [chemical binding]; other site 1048260002693 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1048260002694 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1048260002695 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1048260002696 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1048260002697 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 1048260002698 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1048260002699 Ribosomal protein L19; Region: Ribosomal_L19; pfam01245 1048260002700 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1048260002701 RNA/DNA hybrid binding site [nucleotide binding]; other site 1048260002702 active site 1048260002703 Peptidase family M23; Region: Peptidase_M23; pfam01551 1048260002704 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1048260002705 C-terminal peptidase (prc); Region: prc; TIGR00225 1048260002706 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1048260002707 protein binding site [polypeptide binding]; other site 1048260002708 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1048260002709 Catalytic dyad [active] 1048260002710 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 1048260002711 oligomerisation interface [polypeptide binding]; other site 1048260002712 mobile loop; other site 1048260002713 roof hairpin; other site 1048260002714 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1048260002715 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 1048260002716 ring oligomerisation interface [polypeptide binding]; other site 1048260002717 ATP/Mg binding site [chemical binding]; other site 1048260002718 stacking interactions; other site 1048260002719 hinge regions; other site 1048260002720 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 1048260002721 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1048260002722 catalytic residues [active] 1048260002723 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1048260002724 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260002725 Walker A/P-loop; other site 1048260002726 ATP binding site [chemical binding]; other site 1048260002727 Q-loop/lid; other site 1048260002728 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1048260002729 ABC transporter signature motif; other site 1048260002730 Walker B; other site 1048260002731 D-loop; other site 1048260002732 H-loop/switch region; other site 1048260002733 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1048260002734 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 1048260002735 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1048260002736 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 1048260002737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260002738 catalytic residue [active] 1048260002739 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1048260002740 spermidine synthase; Provisional; Region: PRK00811 1048260002741 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 1048260002742 S-adenosylmethionine binding site [chemical binding]; other site 1048260002743 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1048260002744 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260002745 GAF domain; Region: GAF_3; pfam13492 1048260002746 GAF domain; Region: GAF; pfam01590 1048260002747 GAF domain; Region: GAF_2; pfam13185 1048260002748 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260002749 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260002750 metal binding site [ion binding]; metal-binding site 1048260002751 active site 1048260002752 I-site; other site 1048260002753 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1048260002754 tetramer interfaces [polypeptide binding]; other site 1048260002755 binuclear metal-binding site [ion binding]; other site 1048260002756 recombinase A; Provisional; Region: recA; PRK09354 1048260002757 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 1048260002758 hexamer interface [polypeptide binding]; other site 1048260002759 Walker A motif; other site 1048260002760 ATP binding site [chemical binding]; other site 1048260002761 Walker B motif; other site 1048260002762 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1048260002763 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 1048260002764 motif 1; other site 1048260002765 active site 1048260002766 motif 2; other site 1048260002767 motif 3; other site 1048260002768 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1048260002769 DHHA1 domain; Region: DHHA1; pfam02272 1048260002770 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1048260002771 YceG-like family; Region: YceG; pfam02618 1048260002772 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1048260002773 dimerization interface [polypeptide binding]; other site 1048260002774 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1048260002775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048260002776 active site 1048260002777 HIGH motif; other site 1048260002778 nucleotide binding site [chemical binding]; other site 1048260002779 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1048260002780 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1048260002781 active site 1048260002782 KMSKS motif; other site 1048260002783 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1048260002784 tRNA binding surface [nucleotide binding]; other site 1048260002785 anticodon binding site; other site 1048260002786 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1048260002787 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 1048260002788 dimerization interface [polypeptide binding]; other site 1048260002789 active site 1048260002790 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1048260002791 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1048260002792 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1048260002793 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 1048260002794 PAS domain; Region: PAS_9; pfam13426 1048260002795 putative active site [active] 1048260002796 heme pocket [chemical binding]; other site 1048260002797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260002798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260002799 metal binding site [ion binding]; metal-binding site 1048260002800 active site 1048260002801 I-site; other site 1048260002802 EAL domain; Region: EAL; pfam00563 1048260002803 PAS fold; Region: PAS; pfam00989 1048260002804 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 1048260002805 putative active site [active] 1048260002806 heme pocket [chemical binding]; other site 1048260002807 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1048260002808 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260002809 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260002810 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260002811 malate dehydrogenase; Reviewed; Region: PRK06223 1048260002812 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1048260002813 NAD(P) binding site [chemical binding]; other site 1048260002814 dimer interface [polypeptide binding]; other site 1048260002815 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048260002816 substrate binding site [chemical binding]; other site 1048260002817 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1048260002818 OstA-like protein; Region: OstA; pfam03968 1048260002819 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1048260002820 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1048260002821 Walker A/P-loop; other site 1048260002822 ATP binding site [chemical binding]; other site 1048260002823 Q-loop/lid; other site 1048260002824 ABC transporter signature motif; other site 1048260002825 Walker B; other site 1048260002826 D-loop; other site 1048260002827 H-loop/switch region; other site 1048260002828 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1048260002829 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1048260002830 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1048260002831 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1048260002832 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1048260002833 30S subunit binding site; other site 1048260002834 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1048260002835 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1048260002836 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1048260002837 Tetramer interface [polypeptide binding]; other site 1048260002838 active site 1048260002839 FMN-binding site [chemical binding]; other site 1048260002840 shikimate kinase; Reviewed; Region: aroK; PRK00131 1048260002841 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 1048260002842 ADP binding site [chemical binding]; other site 1048260002843 magnesium binding site [ion binding]; other site 1048260002844 putative shikimate binding site; other site 1048260002845 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1048260002846 active site 1048260002847 dimer interface [polypeptide binding]; other site 1048260002848 metal binding site [ion binding]; metal-binding site 1048260002849 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260002850 GAF domain; Region: GAF; pfam01590 1048260002851 GAF domain; Region: GAF_2; pfam13185 1048260002852 GAF domain; Region: GAF; pfam01590 1048260002853 ANTAR domain; Region: ANTAR; pfam03861 1048260002854 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1048260002855 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 1048260002856 active site 1048260002857 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1048260002858 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1048260002859 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1048260002860 TolA protein; Region: tolA_full; TIGR02794 1048260002861 TonB C terminal; Region: TonB_2; pfam13103 1048260002862 translocation protein TolB; Provisional; Region: tolB; PRK04922 1048260002863 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1048260002864 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1048260002865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1048260002866 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1048260002867 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 1048260002868 binding surface 1048260002869 TPR motif; other site 1048260002870 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1048260002871 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 1048260002872 ATP binding site [chemical binding]; other site 1048260002873 Mg2+ binding site [ion binding]; other site 1048260002874 G-X-G motif; other site 1048260002875 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1048260002876 ATP binding site [chemical binding]; other site 1048260002877 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1048260002878 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1048260002879 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1048260002880 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048260002881 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 1048260002882 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1048260002883 substrate binding site [chemical binding]; other site 1048260002884 ATP binding site [chemical binding]; other site 1048260002885 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1048260002886 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 1048260002887 TPR motif; other site 1048260002888 binding surface 1048260002889 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 1048260002890 binding surface 1048260002891 TPR motif; other site 1048260002892 Helix-turn-helix domain; Region: HTH_25; pfam13413 1048260002893 PEGA domain; Region: PEGA; pfam08308 1048260002894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1048260002895 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1048260002896 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1048260002897 Peptidase family M23; Region: Peptidase_M23; pfam01551 1048260002898 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1048260002899 Clp amino terminal domain; Region: Clp_N; pfam02861 1048260002900 Clp amino terminal domain; Region: Clp_N; pfam02861 1048260002901 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 1048260002902 Walker A motif; other site 1048260002903 ATP binding site [chemical binding]; other site 1048260002904 Walker B motif; other site 1048260002905 arginine finger; other site 1048260002906 UvrB/uvrC motif; Region: UVR; pfam02151 1048260002907 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 1048260002908 Walker A motif; other site 1048260002909 ATP binding site [chemical binding]; other site 1048260002910 Walker B motif; other site 1048260002911 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1048260002912 UGMP family protein; Validated; Region: PRK09604 1048260002913 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1048260002914 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1048260002915 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1048260002916 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1048260002917 active site 1048260002918 HIGH motif; other site 1048260002919 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1048260002920 KMSK motif region; other site 1048260002921 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1048260002922 tRNA binding surface [nucleotide binding]; other site 1048260002923 anticodon binding site; other site 1048260002924 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1048260002925 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1048260002926 Preprotein translocase subunit; Region: YajC; pfam02699 1048260002927 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1048260002928 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1048260002929 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1048260002930 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1048260002931 Protein export membrane protein; Region: SecD_SecF; pfam02355 1048260002932 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1048260002933 DHH family; Region: DHH; pfam01368 1048260002934 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1048260002935 HD domain; Region: HD_4; pfam13328 1048260002936 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1048260002937 synthetase active site [active] 1048260002938 NTP binding site [chemical binding]; other site 1048260002939 metal binding site [ion binding]; metal-binding site 1048260002940 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 1048260002941 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1048260002942 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1048260002943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048260002944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1048260002945 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1048260002946 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1048260002947 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260002948 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1048260002949 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 1048260002950 putative substrate translocation pore; other site 1048260002951 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 1048260002952 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260002953 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1048260002954 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260002955 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260002956 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1048260002957 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 1048260002958 putative substrate translocation pore; other site 1048260002959 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 1048260002960 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1048260002961 Ribosomal protein S19e; Region: Ribosomal_S19e; cl00969 1048260002962 GrpE; Region: GrpE; pfam01025 1048260002963 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 1048260002964 dimer interface [polypeptide binding]; other site 1048260002965 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1048260002966 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1048260002967 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1048260002968 nucleotide binding site [chemical binding]; other site 1048260002969 NEF interaction site [polypeptide binding]; other site 1048260002970 SBD interface [polypeptide binding]; other site 1048260002971 chaperone protein DnaJ; Provisional; Region: PRK10767 1048260002972 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 1048260002973 HSP70 interaction site [polypeptide binding]; other site 1048260002974 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1048260002975 Zn binding sites [ion binding]; other site 1048260002976 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1048260002977 dimer interface [polypeptide binding]; other site 1048260002978 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 1048260002979 RDD family; Region: RDD; pfam06271 1048260002980 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 1048260002981 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 1048260002982 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1048260002983 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1048260002984 putative dimer interface [polypeptide binding]; other site 1048260002985 active site pocket [active] 1048260002986 putative cataytic base [active] 1048260002987 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 1048260002988 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 1048260002989 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1048260002990 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1048260002991 CPxP motif; other site 1048260002992 DsrE/DsrF-like family; Region: DrsE; pfam02635 1048260002993 DsrE/DsrF-like family; Region: DrsE; cl00672 1048260002994 DsrE/DsrF-like family; Region: DrsE; pfam02635 1048260002995 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1048260002996 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 1048260002997 active site 1048260002998 catalytic tetrad [active] 1048260002999 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 1048260003000 catalytic core [active] 1048260003001 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1048260003002 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1048260003003 catalytic triad [active] 1048260003004 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1048260003005 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1048260003006 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1048260003007 isocitrate dehydrogenase; Validated; Region: PRK06451 1048260003008 isocitrate dehydrogenase; Validated; Region: PRK09222 1048260003009 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1048260003010 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1048260003011 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1048260003012 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1048260003013 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1048260003014 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1048260003015 Surface antigen; Region: Bac_surface_Ag; pfam01103 1048260003016 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1048260003017 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1048260003018 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1048260003019 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1048260003020 trimer interface [polypeptide binding]; other site 1048260003021 active site 1048260003022 UDP-GlcNAc binding site [chemical binding]; other site 1048260003023 lipid binding site [chemical binding]; lipid-binding site 1048260003024 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 1048260003025 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1048260003026 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1048260003027 active site 1048260003028 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 1048260003029 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1048260003030 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1048260003031 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1048260003032 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1048260003033 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1048260003034 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048260003035 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 1048260003036 active site 1048260003037 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048260003038 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1048260003039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260003040 Walker A/P-loop; other site 1048260003041 ATP binding site [chemical binding]; other site 1048260003042 Q-loop/lid; other site 1048260003043 ABC transporter signature motif; other site 1048260003044 Walker B; other site 1048260003045 D-loop; other site 1048260003046 H-loop/switch region; other site 1048260003047 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1048260003048 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 1048260003049 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1048260003050 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1048260003051 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1048260003052 putative acyl-acceptor binding pocket; other site 1048260003053 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 1048260003054 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003055 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003056 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003057 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003058 putative active site [active] 1048260003059 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003060 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003061 putative active site [active] 1048260003062 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1048260003063 putative metal binding site; other site 1048260003064 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 1048260003065 active site 1048260003066 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 1048260003067 active site 1048260003068 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260003069 MULE transposase domain; Region: MULE; pfam10551 1048260003070 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048260003071 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 1048260003072 active site 1048260003073 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003074 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 1048260003075 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1048260003076 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 1048260003077 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003078 putative active site [active] 1048260003079 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 1048260003080 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1048260003081 active site 1048260003082 motif I; other site 1048260003083 motif II; other site 1048260003084 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1048260003085 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003086 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003087 putative active site [active] 1048260003088 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003089 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 1048260003090 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003091 putative active site [active] 1048260003092 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1048260003093 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1048260003094 putative active site [active] 1048260003095 putative metal binding site [ion binding]; other site 1048260003096 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260003097 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 1048260003098 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1048260003099 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1048260003100 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 1048260003101 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 1048260003102 inhibitor-cofactor binding pocket; inhibition site 1048260003103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260003104 catalytic residue [active] 1048260003105 Hypothetical patatin similar to WS1459 of Wolinella succinogenes; Region: Pat_hypo_W_succinogenes_WS1459_like; cd07210 1048260003106 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1048260003107 active site 1048260003108 nucleophile elbow; other site 1048260003109 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1048260003110 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1048260003111 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1048260003112 putative active site [active] 1048260003113 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1048260003114 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1048260003115 substrate binding site; other site 1048260003116 dimer interface; other site 1048260003117 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 1048260003118 homotrimer interaction site [polypeptide binding]; other site 1048260003119 zinc binding site [ion binding]; other site 1048260003120 CDP-binding sites; other site 1048260003121 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1048260003122 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1048260003123 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 1048260003124 trimer interface [polypeptide binding]; other site 1048260003125 active site 1048260003126 substrate binding site [chemical binding]; other site 1048260003127 CoA binding site [chemical binding]; other site 1048260003128 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1048260003129 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1048260003130 active site 1048260003131 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1048260003132 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260003133 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260003134 putative active site [active] 1048260003135 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1048260003136 Ligand binding site; other site 1048260003137 Putative Catalytic site; other site 1048260003138 DXD motif; other site 1048260003139 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1048260003140 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1048260003141 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 1048260003142 purine monophosphate binding site [chemical binding]; other site 1048260003143 dimer interface [polypeptide binding]; other site 1048260003144 putative catalytic residues [active] 1048260003145 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1048260003146 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1048260003147 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1048260003148 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1048260003149 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1048260003150 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1048260003151 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1048260003152 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1048260003153 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1048260003154 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 1048260003155 S-adenosylmethionine binding site [chemical binding]; other site 1048260003156 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1048260003157 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1048260003158 active site 1048260003159 (T/H)XGH motif; other site 1048260003160 aspartate aminotransferase; Provisional; Region: PRK05764 1048260003161 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 1048260003162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260003163 homodimer interface [polypeptide binding]; other site 1048260003164 catalytic residue [active] 1048260003165 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1048260003166 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1048260003167 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048260003168 Walker A/P-loop; other site 1048260003169 ATP binding site [chemical binding]; other site 1048260003170 Q-loop/lid; other site 1048260003171 ABC transporter signature motif; other site 1048260003172 Walker B; other site 1048260003173 D-loop; other site 1048260003174 H-loop/switch region; other site 1048260003175 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1048260003176 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1048260003177 FtsX-like permease family; Region: FtsX; pfam02687 1048260003178 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1048260003179 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 1048260003180 dimer interface [polypeptide binding]; other site 1048260003181 putative anticodon binding site; other site 1048260003182 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 1048260003183 motif 1; other site 1048260003184 active site 1048260003185 motif 2; other site 1048260003186 motif 3; other site 1048260003187 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1048260003188 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1048260003189 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 1048260003190 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 1048260003191 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1048260003192 Ferrochelatase; Region: Ferrochelatase; pfam00762 1048260003193 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 1048260003194 C-terminal domain interface [polypeptide binding]; other site 1048260003195 active site 1048260003196 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 1048260003197 active site 1048260003198 N-terminal domain interface [polypeptide binding]; other site 1048260003199 Predicted permeases [General function prediction only]; Region: COG0795 1048260003200 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1048260003201 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1048260003202 Predicted permeases [General function prediction only]; Region: COG0795 1048260003203 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1048260003204 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1048260003205 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 1048260003206 FeS/SAM binding site; other site 1048260003207 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 1048260003208 S-adenosylmethionine binding site [chemical binding]; other site 1048260003209 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1048260003210 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1048260003211 aminotransferase; Validated; Region: PRK08175 1048260003212 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 1048260003213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260003214 homodimer interface [polypeptide binding]; other site 1048260003215 catalytic residue [active] 1048260003216 homoserine dehydrogenase; Provisional; Region: PRK06349 1048260003217 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1048260003218 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1048260003219 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 1048260003220 threonine synthase; Reviewed; Region: PRK06721 1048260003221 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1048260003222 homodimer interface [polypeptide binding]; other site 1048260003223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260003224 catalytic residue [active] 1048260003225 proposed homoserine kinase; Region: hyp_Hser_kinase; TIGR02535 1048260003226 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 1048260003227 aspartate kinase; Reviewed; Region: PRK06635 1048260003228 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 1048260003229 putative nucleotide binding site [chemical binding]; other site 1048260003230 putative catalytic residues [active] 1048260003231 putative Mg ion binding site [ion binding]; other site 1048260003232 putative aspartate binding site [chemical binding]; other site 1048260003233 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 1048260003234 putative allosteric regulatory site; other site 1048260003235 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 1048260003236 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1048260003237 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1048260003238 active site 1048260003239 catalytic residues [active] 1048260003240 metal binding site [ion binding]; metal-binding site 1048260003241 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1048260003242 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1048260003243 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1048260003244 active site 1048260003245 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 1048260003246 IHF dimer interface [polypeptide binding]; other site 1048260003247 IHF - DNA interface [nucleotide binding]; other site 1048260003248 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1048260003249 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1048260003250 DNA binding residues [nucleotide binding] 1048260003251 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1048260003252 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1048260003253 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048260003254 active site 1048260003255 HIGH motif; other site 1048260003256 nucleotide binding site [chemical binding]; other site 1048260003257 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1048260003258 KMSKS motif; other site 1048260003259 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1048260003260 tRNA binding surface [nucleotide binding]; other site 1048260003261 anticodon binding site; other site 1048260003262 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1048260003263 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1048260003264 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 1048260003265 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1048260003266 catalytic residues [active] 1048260003267 NAD synthetase; Provisional; Region: PRK13981 1048260003268 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1048260003269 multimer interface [polypeptide binding]; other site 1048260003270 active site 1048260003271 catalytic triad [active] 1048260003272 protein interface 1 [polypeptide binding]; other site 1048260003273 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 1048260003274 homodimer interface [polypeptide binding]; other site 1048260003275 NAD binding pocket [chemical binding]; other site 1048260003276 ATP binding pocket [chemical binding]; other site 1048260003277 Mg binding site [ion binding]; other site 1048260003278 active-site loop [active] 1048260003279 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1048260003280 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1048260003281 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 1048260003282 dimerization interface [polypeptide binding]; other site 1048260003283 active site 1048260003284 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1048260003285 homopentamer interface [polypeptide binding]; other site 1048260003286 active site 1048260003287 transcription antitermination factor NusB; Region: nusB; TIGR01951 1048260003288 putative RNA binding site [nucleotide binding]; other site 1048260003289 adenylosuccinate lyase; Provisional; Region: PRK07492 1048260003290 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1048260003291 tetramer interface [polypeptide binding]; other site 1048260003292 active site 1048260003293 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 1048260003294 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1048260003295 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1048260003296 ATP binding site [chemical binding]; other site 1048260003297 active site 1048260003298 substrate binding site [chemical binding]; other site 1048260003299 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1048260003300 Asparaginase [Amino acid transport and metabolism]; Region: COG1446 1048260003301 active site 1048260003302 dimer interface [polypeptide binding]; other site 1048260003303 catalytic nucleophile [active] 1048260003304 Acetokinase family; Region: Acetate_kinase; cl17229 1048260003305 propionate/acetate kinase; Provisional; Region: PRK12379 1048260003306 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1048260003307 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 1048260003308 S-adenosylmethionine binding site [chemical binding]; other site 1048260003309 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1048260003310 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1048260003311 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1048260003312 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1048260003313 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1048260003314 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1048260003315 Walker A/P-loop; other site 1048260003316 ATP binding site [chemical binding]; other site 1048260003317 Q-loop/lid; other site 1048260003318 ABC transporter signature motif; other site 1048260003319 Walker B; other site 1048260003320 D-loop; other site 1048260003321 H-loop/switch region; other site 1048260003322 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1048260003323 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1048260003324 Walker A/P-loop; other site 1048260003325 ATP binding site [chemical binding]; other site 1048260003326 Q-loop/lid; other site 1048260003327 ABC transporter signature motif; other site 1048260003328 Walker B; other site 1048260003329 D-loop; other site 1048260003330 H-loop/switch region; other site 1048260003331 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1048260003332 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260003333 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260003334 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260003335 Cytochrome c; Region: Cytochrom_C; cl11414 1048260003336 putative phosphoketolase; Provisional; Region: PRK05261 1048260003337 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1048260003338 TPP-binding site; other site 1048260003339 XFP C-terminal domain; Region: XFP_C; pfam09363 1048260003340 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1048260003341 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1048260003342 putative active site; other site 1048260003343 catalytic residue [active] 1048260003344 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1048260003345 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048260003346 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048260003347 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1048260003348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260003349 NAD(P) binding site [chemical binding]; other site 1048260003350 active site 1048260003351 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1048260003352 putative homodimer interface [polypeptide binding]; other site 1048260003353 putative active site pocket [active] 1048260003354 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1048260003355 phosphoglucomutase; Validated; Region: PRK07564 1048260003356 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1048260003357 active site 1048260003358 substrate binding site [chemical binding]; other site 1048260003359 metal binding site [ion binding]; metal-binding site 1048260003360 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260003361 MULE transposase domain; Region: MULE; pfam10551 1048260003362 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1048260003363 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1048260003364 Low-spin heme binding site [chemical binding]; other site 1048260003365 D-pathway; other site 1048260003366 Putative water exit pathway; other site 1048260003367 Binuclear center (active site) [active] 1048260003368 K-pathway; other site 1048260003369 Putative proton exit pathway; other site 1048260003370 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 1048260003371 putative substrate translocation pore; other site 1048260003372 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048260003373 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1048260003374 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1048260003375 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1048260003376 ABC transporter; Region: ABC_tran_2; pfam12848 1048260003377 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1048260003378 seryl-tRNA synthetase; Region: serS; TIGR00414 1048260003379 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1048260003380 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1048260003381 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1048260003382 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1048260003383 ligand binding site [chemical binding]; other site 1048260003384 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1048260003385 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048260003386 putative active site [active] 1048260003387 putative metal binding site [ion binding]; other site 1048260003388 MULE transposase domain; Region: MULE; pfam10551 1048260003389 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260003390 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 1048260003391 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1048260003392 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1048260003393 active site 1048260003394 metal binding site [ion binding]; metal-binding site 1048260003395 Protein of unknown function, DUF488; Region: DUF488; cl01246 1048260003396 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1048260003397 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 1048260003398 ligand binding site [chemical binding]; other site 1048260003399 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1048260003400 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1048260003401 Peptidase family M50; Region: Peptidase_M50; pfam02163 1048260003402 active site 1048260003403 putative substrate binding region [chemical binding]; other site 1048260003404 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1048260003405 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1048260003406 active site 1048260003407 HIGH motif; other site 1048260003408 dimer interface [polypeptide binding]; other site 1048260003409 KMSKS motif; other site 1048260003410 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1048260003411 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1048260003412 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1048260003413 active site 1048260003414 PHP Thumb interface [polypeptide binding]; other site 1048260003415 metal binding site [ion binding]; metal-binding site 1048260003416 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 1048260003417 generic binding surface II; other site 1048260003418 generic binding surface I; other site 1048260003419 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1048260003420 Part of AAA domain; Region: AAA_19; pfam13245 1048260003421 Family description; Region: UvrD_C_2; pfam13538 1048260003422 HAMP domain; Region: HAMP; pfam00672 1048260003423 dimerization interface [polypeptide binding]; other site 1048260003424 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1048260003425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260003426 dimer interface [polypeptide binding]; other site 1048260003427 putative CheW interface [polypeptide binding]; other site 1048260003428 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1048260003429 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1048260003430 peptide binding site [polypeptide binding]; other site 1048260003431 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1048260003432 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260003433 catalytic residue [active] 1048260003434 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1048260003435 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1048260003436 ligand binding site [chemical binding]; other site 1048260003437 NAD binding site [chemical binding]; other site 1048260003438 dimerization interface [polypeptide binding]; other site 1048260003439 catalytic site [active] 1048260003440 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1048260003441 putative L-serine binding site [chemical binding]; other site 1048260003442 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 1048260003443 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 1048260003444 dimer interface [polypeptide binding]; other site 1048260003445 motif 1; other site 1048260003446 active site 1048260003447 motif 2; other site 1048260003448 motif 3; other site 1048260003449 replicative DNA helicase; Region: DnaB; TIGR00665 1048260003450 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1048260003451 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 1048260003452 Walker A motif; other site 1048260003453 ATP binding site [chemical binding]; other site 1048260003454 Walker B motif; other site 1048260003455 DNA binding loops [nucleotide binding] 1048260003456 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1048260003457 type II secretion system protein J; Region: gspJ; TIGR01711 1048260003458 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1048260003459 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1048260003460 type II secretion system protein I; Region: gspI; TIGR01707 1048260003461 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 1048260003462 DNA-binding site [nucleotide binding]; DNA binding site 1048260003463 RNA-binding motif; other site 1048260003464 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 1048260003465 Permease; Region: Permease; pfam02405 1048260003466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260003467 Walker A/P-loop; other site 1048260003468 ATP binding site [chemical binding]; other site 1048260003469 ABC transporter; Region: ABC_tran; pfam00005 1048260003470 Q-loop/lid; other site 1048260003471 ABC transporter signature motif; other site 1048260003472 Walker B; other site 1048260003473 D-loop; other site 1048260003474 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1048260003475 mce related protein; Region: MCE; pfam02470 1048260003476 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1048260003477 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 1048260003478 binding surface 1048260003479 TPR motif; other site 1048260003480 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; cl00470 1048260003481 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1048260003482 putative active site [active] 1048260003483 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1048260003484 Sel1-like repeats; Region: SEL1; smart00671 1048260003485 Kelch domain; Region: Kelch; smart00612 1048260003486 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1048260003487 Kelch domain; Region: Kelch; smart00612 1048260003488 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1048260003489 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1048260003490 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 1048260003491 structural tetrad; other site 1048260003492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260003493 metal binding site [ion binding]; metal-binding site 1048260003494 active site 1048260003495 I-site; other site 1048260003496 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 1048260003497 dimerization interface [polypeptide binding]; other site 1048260003498 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1048260003499 cyclase homology domain; Region: CHD; cd07302 1048260003500 nucleotidyl binding site; other site 1048260003501 metal binding site [ion binding]; metal-binding site 1048260003502 dimer interface [polypeptide binding]; other site 1048260003503 TPR repeat; Region: TPR_11; pfam13414 1048260003504 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1048260003505 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1048260003506 ATP-grasp domain; Region: ATP-grasp; pfam02222 1048260003507 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1048260003508 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1048260003509 SLBB domain; Region: SLBB; pfam10531 1048260003510 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1048260003511 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1048260003512 dimer interface [polypeptide binding]; other site 1048260003513 [2Fe-2S] cluster binding site [ion binding]; other site 1048260003514 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 1048260003515 TPR motif; other site 1048260003516 binding surface 1048260003517 TPR repeat; Region: TPR_11; pfam13414 1048260003518 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 1048260003519 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1048260003520 catalytic residue [active] 1048260003521 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1048260003522 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1048260003523 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1048260003524 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 1048260003525 ligand binding site [chemical binding]; other site 1048260003526 flexible hinge region; other site 1048260003527 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1048260003528 putative switch regulator; other site 1048260003529 non-specific DNA interactions [nucleotide binding]; other site 1048260003530 DNA binding site [nucleotide binding] 1048260003531 sequence specific DNA binding site [nucleotide binding]; other site 1048260003532 putative cAMP binding site [chemical binding]; other site 1048260003533 glycogen synthase; Provisional; Region: glgA; PRK00654 1048260003534 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 1048260003535 ADP-binding pocket [chemical binding]; other site 1048260003536 homodimer interface [polypeptide binding]; other site 1048260003537 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1048260003538 dinuclear metal binding motif [ion binding]; other site 1048260003539 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1048260003540 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1048260003541 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1048260003542 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 1048260003543 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1048260003544 active site 1048260003545 DNA binding site [nucleotide binding] 1048260003546 Int/Topo IB signature motif; other site 1048260003547 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 1048260003548 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 1048260003549 FeS/SAM binding site; other site 1048260003550 MoxR-like ATPases [General function prediction only]; Region: COG0714 1048260003551 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 1048260003552 Walker A motif; other site 1048260003553 ATP binding site [chemical binding]; other site 1048260003554 Walker B motif; other site 1048260003555 arginine finger; other site 1048260003556 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1048260003557 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1048260003558 AAA-like domain; Region: AAA_10; pfam12846 1048260003559 TrbC/VIRB2 family; Region: TrbC; pfam04956 1048260003560 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1048260003561 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1048260003562 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048260003563 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1048260003564 Walker A/P-loop; other site 1048260003565 ATP binding site [chemical binding]; other site 1048260003566 Q-loop/lid; other site 1048260003567 ABC transporter signature motif; other site 1048260003568 Walker B; other site 1048260003569 D-loop; other site 1048260003570 H-loop/switch region; other site 1048260003571 FtsX-like permease family; Region: FtsX; pfam02687 1048260003572 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1048260003573 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1048260003574 FtsX-like permease family; Region: FtsX; pfam02687 1048260003575 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1048260003576 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1048260003577 Predicted transcriptional regulator [Transcription]; Region: COG1959 1048260003578 Transcriptional regulator; Region: Rrf2; pfam02082 1048260003579 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1048260003580 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 1048260003581 dimerization interface [polypeptide binding]; other site 1048260003582 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1048260003583 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1048260003584 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1048260003585 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1048260003586 minor groove reading motif; other site 1048260003587 helix-hairpin-helix signature motif; other site 1048260003588 substrate binding pocket [chemical binding]; other site 1048260003589 active site 1048260003590 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1048260003591 dimer interface [polypeptide binding]; other site 1048260003592 [2Fe-2S] cluster binding site [ion binding]; other site 1048260003593 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1048260003594 SLBB domain; Region: SLBB; pfam10531 1048260003595 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1048260003596 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1048260003597 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1048260003598 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1048260003599 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1048260003600 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1048260003601 catalytic triad [active] 1048260003602 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1048260003603 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260003604 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1048260003605 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260003606 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1048260003607 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1048260003608 active site 1048260003609 HIGH motif; other site 1048260003610 dimer interface [polypeptide binding]; other site 1048260003611 KMSKS motif; other site 1048260003612 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 1048260003613 RNA binding surface [nucleotide binding]; other site 1048260003614 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 1048260003615 active site 1048260003616 multimer interface [polypeptide binding]; other site 1048260003617 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1048260003618 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1048260003619 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1048260003620 NAD binding site [chemical binding]; other site 1048260003621 putative substrate binding site 2 [chemical binding]; other site 1048260003622 putative substrate binding site 1 [chemical binding]; other site 1048260003623 active site 1048260003624 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1048260003625 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1048260003626 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1048260003627 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1048260003628 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1048260003629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1048260003630 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1048260003631 Predicted membrane protein [Function unknown]; Region: COG3174 1048260003632 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1048260003633 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1048260003634 hypothetical protein; Validated; Region: PRK00110 1048260003635 Chorismate mutase type II; Region: CM_2; pfam01817 1048260003636 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1048260003637 Prephenate dehydratase; Region: PDT; pfam00800 1048260003638 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 1048260003639 putative L-Phe binding site [chemical binding]; other site 1048260003640 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1048260003641 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1048260003642 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1048260003643 prephenate dehydrogenase; Validated; Region: PRK08507 1048260003644 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1048260003645 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 1048260003646 hinge; other site 1048260003647 active site 1048260003648 cytidylate kinase; Provisional; Region: cmk; PRK00023 1048260003649 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 1048260003650 CMP-binding site; other site 1048260003651 The sites determining sugar specificity; other site 1048260003652 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1048260003653 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1048260003654 putative acyl-acceptor binding pocket; other site 1048260003655 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 1048260003656 TrkA-C domain; Region: TrkA_C; pfam02080 1048260003657 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 1048260003658 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1048260003659 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1048260003660 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1048260003661 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1048260003662 homodecamer interface [polypeptide binding]; other site 1048260003663 GTP cyclohydrolase I; Provisional; Region: PLN03044 1048260003664 active site 1048260003665 putative catalytic site residues [active] 1048260003666 zinc binding site [ion binding]; other site 1048260003667 GTP-CH-I/GFRP interaction surface; other site 1048260003668 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1048260003669 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1048260003670 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1048260003671 homodimer interface [polypeptide binding]; other site 1048260003672 NADP binding site [chemical binding]; other site 1048260003673 substrate binding site [chemical binding]; other site 1048260003674 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 1048260003675 FAD binding site [chemical binding]; other site 1048260003676 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 1048260003677 active site 1048260003678 oligomerization interface [polypeptide binding]; other site 1048260003679 metal binding site [ion binding]; metal-binding site 1048260003680 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; cl15777 1048260003681 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 1048260003682 putative catalytic site [active] 1048260003683 putative phosphate binding site [ion binding]; other site 1048260003684 active site 1048260003685 metal binding site A [ion binding]; metal-binding site 1048260003686 DNA binding site [nucleotide binding] 1048260003687 putative AP binding site [nucleotide binding]; other site 1048260003688 putative metal binding site B [ion binding]; other site 1048260003689 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1048260003690 dinuclear metal binding motif [ion binding]; other site 1048260003691 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260003692 dimer interface [polypeptide binding]; other site 1048260003693 putative CheW interface [polypeptide binding]; other site 1048260003694 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1048260003695 FAD binding domain; Region: FAD_binding_4; pfam01565 1048260003696 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1048260003697 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 1048260003698 Cysteine-rich domain; Region: CCG; pfam02754 1048260003699 Cysteine-rich domain; Region: CCG; pfam02754 1048260003700 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1048260003701 generic binding surface I; other site 1048260003702 generic binding surface II; other site 1048260003703 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260003704 Zn2+ binding site [ion binding]; other site 1048260003705 Mg2+ binding site [ion binding]; other site 1048260003706 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 1048260003707 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 1048260003708 active site 1048260003709 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1048260003710 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 1048260003711 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 1048260003712 phosphate binding site [ion binding]; other site 1048260003713 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 1048260003714 domain_subunit interface; other site 1048260003715 YCII-related domain; Region: YCII; cl00999 1048260003716 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1048260003717 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1048260003718 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1048260003719 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1048260003720 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 1048260003721 DNA binding residues [nucleotide binding] 1048260003722 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260003723 active site 1048260003724 Acylphosphatase; Region: Acylphosphatase; pfam00708 1048260003725 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1048260003726 Class II fumarases; Region: Fumarase_classII; cd01362 1048260003727 active site 1048260003728 tetramer interface [polypeptide binding]; other site 1048260003729 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1048260003730 DNA binding residues [nucleotide binding] 1048260003731 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1048260003732 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 1048260003733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260003734 homodimer interface [polypeptide binding]; other site 1048260003735 catalytic residue [active] 1048260003736 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1048260003737 cobyric acid synthase; Provisional; Region: PRK00784 1048260003738 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 1048260003739 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 1048260003740 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1048260003741 catalytic triad [active] 1048260003742 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1048260003743 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1048260003744 RmuC family; Region: RmuC; pfam02646 1048260003745 Predicted membrane protein [Function unknown]; Region: COG1950 1048260003746 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1048260003747 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1048260003748 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 1048260003749 B12 binding site [chemical binding]; other site 1048260003750 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 1048260003751 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1048260003752 FeS/SAM binding site; other site 1048260003753 tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; Region: MiaE_2; pfam13794 1048260003754 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1048260003755 active site 1048260003756 SAM binding site [chemical binding]; other site 1048260003757 homodimer interface [polypeptide binding]; other site 1048260003758 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1048260003759 active site 1048260003760 SAM binding site [chemical binding]; other site 1048260003761 homodimer interface [polypeptide binding]; other site 1048260003762 Domain of unknown function (DUF329); Region: DUF329; cl01144 1048260003763 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1048260003764 Lumazine binding domain; Region: Lum_binding; pfam00677 1048260003765 Lumazine binding domain; Region: Lum_binding; pfam00677 1048260003766 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1048260003767 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 1048260003768 catalytic motif [active] 1048260003769 Zn binding site [ion binding]; other site 1048260003770 RibD C-terminal domain; Region: RibD_C; cl17279 1048260003771 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1048260003772 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1048260003773 motif 1; other site 1048260003774 dimer interface [polypeptide binding]; other site 1048260003775 active site 1048260003776 motif 2; other site 1048260003777 motif 3; other site 1048260003778 CHASE3 domain; Region: CHASE3; pfam05227 1048260003779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260003780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260003781 metal binding site [ion binding]; metal-binding site 1048260003782 active site 1048260003783 I-site; other site 1048260003784 biotin synthase; Region: bioB; TIGR00433 1048260003785 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 1048260003786 FeS/SAM binding site; other site 1048260003787 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1048260003788 6-carboxyhexanoate--CoA ligase; Region: BioW; pfam03744 1048260003789 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1048260003790 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1048260003791 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048260003792 catalytic residue [active] 1048260003793 FOG: CBS domain [General function prediction only]; Region: COG0517 1048260003794 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1048260003795 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1048260003796 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1048260003797 hypothetical protein; Provisional; Region: PRK11820 1048260003798 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1048260003799 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1048260003800 Domain of unknown function (DUF370); Region: DUF370; pfam04025 1048260003801 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1048260003802 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 1048260003803 catalytic site [active] 1048260003804 G-X2-G-X-G-K; other site 1048260003805 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1048260003806 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1048260003807 Flavoprotein; Region: Flavoprotein; pfam02441 1048260003808 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1048260003809 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1048260003810 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 1048260003811 binding surface 1048260003812 TPR motif; other site 1048260003813 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1048260003814 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1048260003815 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 1048260003816 trimer interface [polypeptide binding]; other site 1048260003817 active site 1048260003818 dimer interface [polypeptide binding]; other site 1048260003819 elongation factor P; Validated; Region: PRK00529 1048260003820 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1048260003821 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 1048260003822 RNA binding site [nucleotide binding]; other site 1048260003823 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 1048260003824 RNA binding site [nucleotide binding]; other site 1048260003825 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1048260003826 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 1048260003827 carboxyltransferase (CT) interaction site; other site 1048260003828 biotinylation site [posttranslational modification]; other site 1048260003829 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1048260003830 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1048260003831 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1048260003832 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1048260003833 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1048260003834 thiamine phosphate binding site [chemical binding]; other site 1048260003835 active site 1048260003836 pyrophosphate binding site [ion binding]; other site 1048260003837 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1048260003838 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 1048260003839 active site 1048260003840 phosphorylation site [posttranslational modification] 1048260003841 intermolecular recognition site; other site 1048260003842 dimerization interface [polypeptide binding]; other site 1048260003843 PAS fold; Region: PAS_4; pfam08448 1048260003844 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 1048260003845 putative active site [active] 1048260003846 heme pocket [chemical binding]; other site 1048260003847 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260003848 GAF domain; Region: GAF_3; pfam13492 1048260003849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260003850 metal binding site [ion binding]; metal-binding site 1048260003851 active site 1048260003852 I-site; other site 1048260003853 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 1048260003854 Response regulator receiver domain; Region: Response_reg; pfam00072 1048260003855 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 1048260003856 active site 1048260003857 phosphorylation site [posttranslational modification] 1048260003858 intermolecular recognition site; other site 1048260003859 dimerization interface [polypeptide binding]; other site 1048260003860 CHASE3 domain; Region: CHASE3; pfam05227 1048260003861 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 1048260003862 putative active site [active] 1048260003863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048260003864 heme pocket [chemical binding]; other site 1048260003865 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 1048260003866 dimer interface [polypeptide binding]; other site 1048260003867 phosphorylation site [posttranslational modification] 1048260003868 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 1048260003869 ATP binding site [chemical binding]; other site 1048260003870 Mg2+ binding site [ion binding]; other site 1048260003871 G-X-G motif; other site 1048260003872 Spectrin repeats; Region: SPEC; smart00150 1048260003873 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 1048260003874 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1048260003875 OsmC-like protein; Region: OsmC; pfam02566 1048260003876 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1048260003877 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 1048260003878 inhibitor-cofactor binding pocket; inhibition site 1048260003879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260003880 catalytic residue [active] 1048260003881 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 1048260003882 binding surface 1048260003883 TPR motif; other site 1048260003884 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1048260003885 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 1048260003886 binding surface 1048260003887 TPR motif; other site 1048260003888 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 1048260003889 binding surface 1048260003890 TPR motif; other site 1048260003891 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 1048260003892 binding surface 1048260003893 TPR motif; other site 1048260003894 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1048260003895 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1048260003896 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1048260003897 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 1048260003898 FAD binding pocket [chemical binding]; other site 1048260003899 FAD binding motif [chemical binding]; other site 1048260003900 phosphate binding motif [ion binding]; other site 1048260003901 beta-alpha-beta structure motif; other site 1048260003902 NAD binding pocket [chemical binding]; other site 1048260003903 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1048260003904 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1048260003905 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1048260003906 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260003907 Walker A/P-loop; other site 1048260003908 ATP binding site [chemical binding]; other site 1048260003909 Q-loop/lid; other site 1048260003910 ABC transporter signature motif; other site 1048260003911 Walker B; other site 1048260003912 D-loop; other site 1048260003913 H-loop/switch region; other site 1048260003914 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260003915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1048260003916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1048260003917 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 1048260003918 dimerization interface [polypeptide binding]; other site 1048260003919 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260003920 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260003921 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260003922 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260003923 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1048260003924 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048260003925 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1048260003926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1048260003927 putative acyl-acceptor binding pocket; other site 1048260003928 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1048260003929 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1048260003930 putative active site [active] 1048260003931 catalytic triad [active] 1048260003932 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1048260003933 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 1048260003934 dimerization interface [polypeptide binding]; other site 1048260003935 ATP binding site [chemical binding]; other site 1048260003936 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 1048260003937 dimerization interface [polypeptide binding]; other site 1048260003938 ATP binding site [chemical binding]; other site 1048260003939 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1048260003940 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 1048260003941 active site 1048260003942 tetramer interface [polypeptide binding]; other site 1048260003943 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260003944 active site 1048260003945 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 1048260003946 TPR motif; other site 1048260003947 binding surface 1048260003948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260003949 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1048260003950 NAD(P) binding site [chemical binding]; other site 1048260003951 active site 1048260003952 H+ Antiporter protein; Region: 2A0121; TIGR00900 1048260003953 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 1048260003954 putative substrate translocation pore; other site 1048260003955 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 1048260003956 Transmembrane secretion effector; Region: MFS_3; pfam05977 1048260003957 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260003958 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1048260003959 putative ADP-binding pocket [chemical binding]; other site 1048260003960 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 1048260003961 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 1048260003962 active site 1048260003963 homotetramer interface [polypeptide binding]; other site 1048260003964 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1048260003965 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1048260003966 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1048260003967 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1048260003968 NADP binding site [chemical binding]; other site 1048260003969 active site 1048260003970 putative substrate binding site [chemical binding]; other site 1048260003971 Ribosomal protein L17; Region: Ribosomal_L17; pfam01196 1048260003972 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1048260003973 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1048260003974 alphaNTD homodimer interface [polypeptide binding]; other site 1048260003975 alphaNTD - beta interaction site [polypeptide binding]; other site 1048260003976 alphaNTD - beta' interaction site [polypeptide binding]; other site 1048260003977 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1048260003978 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 1048260003979 active site 1048260003980 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1048260003981 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1048260003982 SecY translocase; Region: SecY; pfam00344 1048260003983 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1048260003984 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1048260003985 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1048260003986 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1048260003987 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1048260003988 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1048260003989 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1048260003990 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 1048260003991 signal recognition particle (SRP54) interaction site; other site 1048260003992 L23 interface [polypeptide binding]; other site 1048260003993 trigger factor interaction site; other site 1048260003994 23S rRNA interface [nucleotide binding]; other site 1048260003995 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 1048260003996 L27 interface [polypeptide binding]; other site 1048260003997 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1048260003998 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1048260003999 G-X-X-G motif; other site 1048260004000 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1048260004001 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1048260004002 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1048260004003 elongation factor Tu; Reviewed; Region: PRK00049 1048260004004 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1048260004005 G1 box; other site 1048260004006 GEF interaction site [polypeptide binding]; other site 1048260004007 GTP/Mg2+ binding site [chemical binding]; other site 1048260004008 Switch I region; other site 1048260004009 G2 box; other site 1048260004010 G3 box; other site 1048260004011 Switch II region; other site 1048260004012 G4 box; other site 1048260004013 G5 box; other site 1048260004014 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 1048260004015 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 1048260004016 Antibiotic Binding Site [chemical binding]; other site 1048260004017 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 1048260004018 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 1048260004019 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 1048260004020 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1048260004021 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1048260004022 G1 box; other site 1048260004023 putative GEF interaction site [polypeptide binding]; other site 1048260004024 GTP/Mg2+ binding site [chemical binding]; other site 1048260004025 Switch I region; other site 1048260004026 G2 box; other site 1048260004027 G3 box; other site 1048260004028 Switch II region; other site 1048260004029 G4 box; other site 1048260004030 G5 box; other site 1048260004031 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 1048260004032 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 1048260004033 30S ribosomal protein S12; Validated; Region: rpsL; PRK05163 1048260004034 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1048260004035 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1048260004036 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1048260004037 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1048260004038 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1048260004039 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1048260004040 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1048260004041 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1048260004042 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1048260004043 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1048260004044 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1048260004045 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1048260004046 DNA binding site [nucleotide binding] 1048260004047 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1048260004048 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 1048260004049 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1048260004050 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1048260004051 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 1048260004052 RPB11 interaction site [polypeptide binding]; other site 1048260004053 RPB12 interaction site [polypeptide binding]; other site 1048260004054 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 1048260004055 RPB3 interaction site [polypeptide binding]; other site 1048260004056 RPB1 interaction site [polypeptide binding]; other site 1048260004057 RPB11 interaction site [polypeptide binding]; other site 1048260004058 RPB10 interaction site [polypeptide binding]; other site 1048260004059 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 1048260004060 core dimer interface [polypeptide binding]; other site 1048260004061 peripheral dimer interface [polypeptide binding]; other site 1048260004062 L10 interface [polypeptide binding]; other site 1048260004063 L11 interface [polypeptide binding]; other site 1048260004064 putative EF-Tu interaction site [polypeptide binding]; other site 1048260004065 putative EF-G interaction site [polypeptide binding]; other site 1048260004066 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 1048260004067 23S rRNA interface [nucleotide binding]; other site 1048260004068 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1048260004069 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 1048260004070 mRNA/rRNA interface [nucleotide binding]; other site 1048260004071 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1048260004072 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 1048260004073 23S rRNA interface [nucleotide binding]; other site 1048260004074 L7/L12 interface [polypeptide binding]; other site 1048260004075 putative thiostrepton binding site; other site 1048260004076 L25 interface [polypeptide binding]; other site 1048260004077 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1048260004078 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1048260004079 putative homodimer interface [polypeptide binding]; other site 1048260004080 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1048260004081 heterodimer interface [polypeptide binding]; other site 1048260004082 homodimer interface [polypeptide binding]; other site 1048260004083 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1048260004084 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1048260004085 elongation factor Tu; Reviewed; Region: PRK00049 1048260004086 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1048260004087 G1 box; other site 1048260004088 GEF interaction site [polypeptide binding]; other site 1048260004089 GTP/Mg2+ binding site [chemical binding]; other site 1048260004090 Switch I region; other site 1048260004091 G2 box; other site 1048260004092 G3 box; other site 1048260004093 Switch II region; other site 1048260004094 G4 box; other site 1048260004095 G5 box; other site 1048260004096 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 1048260004097 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 1048260004098 Antibiotic Binding Site [chemical binding]; other site 1048260004099 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1048260004100 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1048260004101 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1048260004102 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 1048260004103 FeS/SAM binding site; other site 1048260004104 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1048260004105 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1048260004106 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1048260004107 Sporulation related domain; Region: SPOR; pfam05036 1048260004108 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 1048260004109 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1048260004110 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1048260004111 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 1048260004112 dimer interface [polypeptide binding]; other site 1048260004113 ssDNA binding site [nucleotide binding]; other site 1048260004114 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048260004115 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 1048260004116 GTP-binding protein YchF; Reviewed; Region: PRK09601 1048260004117 YchF GTPase; Region: YchF; cd01900 1048260004118 G1 box; other site 1048260004119 GTP/Mg2+ binding site [chemical binding]; other site 1048260004120 Switch I region; other site 1048260004121 G2 box; other site 1048260004122 Switch II region; other site 1048260004123 G3 box; other site 1048260004124 G4 box; other site 1048260004125 G5 box; other site 1048260004126 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 1048260004127 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 1048260004128 putative active site [active] 1048260004129 catalytic residue [active] 1048260004130 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1048260004131 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1048260004132 5S rRNA interface [nucleotide binding]; other site 1048260004133 CTC domain interface [polypeptide binding]; other site 1048260004134 L16 interface [polypeptide binding]; other site 1048260004135 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1048260004136 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1048260004137 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260004138 active site 1048260004139 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 1048260004140 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1048260004141 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1048260004142 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 1048260004143 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 1048260004144 FeS/SAM binding site; other site 1048260004145 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1048260004146 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1048260004147 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1048260004148 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1048260004149 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 1048260004150 Walker A motif; other site 1048260004151 ATP binding site [chemical binding]; other site 1048260004152 Walker B motif; other site 1048260004153 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1048260004154 Clp protease; Region: CLP_protease; pfam00574 1048260004155 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1048260004156 oligomer interface [polypeptide binding]; other site 1048260004157 active site residues [active] 1048260004158 trigger factor; Region: tig; TIGR00115 1048260004159 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1048260004160 hypothetical protein; Provisional; Region: PRK07236 1048260004161 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1048260004162 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1048260004163 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1048260004164 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1048260004165 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 1048260004166 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1048260004167 putative active site [active] 1048260004168 catalytic residue [active] 1048260004169 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 1048260004170 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 1048260004171 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1048260004172 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 1048260004173 TPP-binding site [chemical binding]; other site 1048260004174 dimer interface [polypeptide binding]; other site 1048260004175 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 1048260004176 PYR/PP interface [polypeptide binding]; other site 1048260004177 dimer interface [polypeptide binding]; other site 1048260004178 TPP binding site [chemical binding]; other site 1048260004179 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048260004180 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1048260004181 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1048260004182 putative active site [active] 1048260004183 glucokinase, proteobacterial type; Region: glk; TIGR00749 1048260004184 Glucokinase; Region: Glucokinase; pfam02685 1048260004185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260004186 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260004187 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260004188 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260004189 MULE transposase domain; Region: MULE; pfam10551 1048260004190 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1048260004191 HDOD domain; Region: HDOD; pfam08668 1048260004192 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260004193 Zn2+ binding site [ion binding]; other site 1048260004194 Mg2+ binding site [ion binding]; other site 1048260004195 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 1048260004196 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 1048260004197 FeS/SAM binding site; other site 1048260004198 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 1048260004199 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1048260004200 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1048260004201 putative NAD(P) binding site [chemical binding]; other site 1048260004202 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1048260004203 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048260004204 active site 1048260004205 metal binding site [ion binding]; metal-binding site 1048260004206 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1048260004207 protoporphyrinogen oxidase; Region: PLN02576 1048260004208 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1048260004209 EamA-like transporter family; Region: EamA; pfam00892 1048260004210 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1048260004211 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 1048260004212 Cl- selectivity filter; other site 1048260004213 Cl- binding residues [ion binding]; other site 1048260004214 pore gating glutamate residue; other site 1048260004215 dimer interface [polypeptide binding]; other site 1048260004216 FOG: CBS domain [General function prediction only]; Region: COG0517 1048260004217 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 1048260004218 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1048260004219 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 1048260004220 active site 1048260004221 DNA binding site [nucleotide binding] 1048260004222 Int/Topo IB signature motif; other site 1048260004223 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1048260004224 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1048260004225 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 1048260004226 Walker A motif; other site 1048260004227 ATP binding site [chemical binding]; other site 1048260004228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260004229 Integrase core domain; Region: rve; pfam00665 1048260004230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260004231 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1048260004232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260004233 Integrase core domain; Region: rve; pfam00665 1048260004234 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1048260004235 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 1048260004236 Walker A motif; other site 1048260004237 ATP binding site [chemical binding]; other site 1048260004238 Walker B motif; other site 1048260004239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260004240 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 1048260004241 adenylosuccinate lyase; Provisional; Region: PRK07492 1048260004242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260004243 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260004244 TIGR04255 family protein; Region: sporadTIGR04255 1048260004245 YcfA-like protein; Region: YcfA; cl00752 1048260004246 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1048260004247 TrwC relaxase; Region: TrwC; pfam08751 1048260004248 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1048260004249 AAA domain; Region: AAA_30; pfam13604 1048260004250 Family description; Region: UvrD_C_2; pfam13538 1048260004251 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 1048260004252 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1048260004253 Walker A motif; other site 1048260004254 ATP binding site [chemical binding]; other site 1048260004255 Walker B motif; other site 1048260004256 ParA-like protein; Provisional; Region: PHA02518 1048260004257 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 1048260004258 Domain of unknown function (DUF3854); Region: DUF3854; pfam12965 1048260004259 Virulence-associated protein E; Region: VirE; pfam05272 1048260004260 Restriction endonuclease; Region: Mrr_cat; pfam04471 1048260004261 Predicted helicase [General function prediction only]; Region: COG4889 1048260004262 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1048260004263 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 1048260004264 ATP binding site [chemical binding]; other site 1048260004265 putative Mg++ binding site [ion binding]; other site 1048260004266 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1048260004267 nucleotide binding region [chemical binding]; other site 1048260004268 ATP-binding site [chemical binding]; other site 1048260004269 hypothetical protein; Provisional; Region: PRK06153 1048260004270 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1048260004271 ATP binding site [chemical binding]; other site 1048260004272 substrate interface [chemical binding]; other site 1048260004273 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 1048260004274 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1048260004275 Domain of unknown function (DUF955); Region: DUF955; cl01076 1048260004276 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 1048260004277 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1048260004278 Winged helix-turn helix; Region: HTH_29; pfam13551 1048260004279 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1048260004280 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1048260004281 putative active site [active] 1048260004282 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 1048260004283 PAS domain; Region: PAS_9; pfam13426 1048260004284 putative active site [active] 1048260004285 heme pocket [chemical binding]; other site 1048260004286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260004287 dimer interface [polypeptide binding]; other site 1048260004288 putative CheW interface [polypeptide binding]; other site 1048260004289 Cache domain; Region: Cache_1; pfam02743 1048260004290 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1048260004291 ORF6N domain; Region: ORF6N; pfam10543 1048260004292 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 1048260004293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1048260004294 active site 1048260004295 catalytic tetrad [active] 1048260004296 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1048260004297 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1048260004298 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1048260004299 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1048260004300 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1048260004301 minor groove reading motif; other site 1048260004302 helix-hairpin-helix signature motif; other site 1048260004303 substrate binding pocket [chemical binding]; other site 1048260004304 active site 1048260004305 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1048260004306 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1048260004307 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 1048260004308 DNA binding site [nucleotide binding] 1048260004309 active site 1048260004310 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 1048260004311 binding surface 1048260004312 TPR motif; other site 1048260004313 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1048260004314 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1048260004315 active site 1048260004316 DNA binding site [nucleotide binding] 1048260004317 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1048260004318 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 1048260004319 active site 1048260004320 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1048260004321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1048260004322 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1048260004323 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1048260004324 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 1048260004325 sequence-specific DNA binding site [nucleotide binding]; other site 1048260004326 salt bridge; other site 1048260004327 hydrogenase 4 subunit B; Validated; Region: PRK06521 1048260004328 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260004329 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1048260004330 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 1048260004331 hydrogenase 4 subunit F; Validated; Region: PRK06458 1048260004332 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260004333 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 1048260004334 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1048260004335 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1048260004336 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 1048260004337 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 1048260004338 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1048260004339 ligand binding site [chemical binding]; other site 1048260004340 flexible hinge region; other site 1048260004341 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1048260004342 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1048260004343 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1048260004344 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1048260004345 putative active site [active] 1048260004346 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1048260004347 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 1048260004348 oligomeric interface; other site 1048260004349 putative active site [active] 1048260004350 homodimer interface [polypeptide binding]; other site 1048260004351 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1048260004352 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1048260004353 putative active site [active] 1048260004354 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1048260004355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260004356 Zn2+ binding site [ion binding]; other site 1048260004357 Mg2+ binding site [ion binding]; other site 1048260004358 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 1048260004359 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048260004360 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1048260004361 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1048260004362 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1048260004363 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1048260004364 B12 binding domain; Region: B12-binding; pfam02310 1048260004365 B12 binding site [chemical binding]; other site 1048260004366 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1048260004367 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 1048260004368 FeS/SAM binding site; other site 1048260004369 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1048260004370 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1048260004371 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1048260004372 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1048260004373 NADP binding site [chemical binding]; other site 1048260004374 active site 1048260004375 putative substrate binding site [chemical binding]; other site 1048260004376 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1048260004377 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 1048260004378 tetramer interface [polypeptide binding]; other site 1048260004379 TPP-binding site [chemical binding]; other site 1048260004380 heterodimer interface [polypeptide binding]; other site 1048260004381 phosphorylation loop region [posttranslational modification] 1048260004382 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1048260004383 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 1048260004384 alpha subunit interface [polypeptide binding]; other site 1048260004385 TPP binding site [chemical binding]; other site 1048260004386 heterodimer interface [polypeptide binding]; other site 1048260004387 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048260004388 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 1048260004389 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1048260004390 inhibitor-cofactor binding pocket; inhibition site 1048260004391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260004392 catalytic residue [active] 1048260004393 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 1048260004394 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 1048260004395 Substrate binding site; other site 1048260004396 Mg++ binding site; other site 1048260004397 metal-binding site 1048260004398 Mg++ binding site; other site 1048260004399 metal-binding site 1048260004400 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1048260004401 extended (e) SDRs; Region: SDR_e; cd08946 1048260004402 NAD(P) binding site [chemical binding]; other site 1048260004403 active site 1048260004404 substrate binding site [chemical binding]; other site 1048260004405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260004406 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1048260004407 Putative Catalytic site; other site 1048260004408 DXD motif; other site 1048260004409 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048260004410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260004411 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260004412 transposase/IS protein; Provisional; Region: PRK09183 1048260004413 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 1048260004414 Walker A motif; other site 1048260004415 ATP binding site [chemical binding]; other site 1048260004416 Walker B motif; other site 1048260004417 arginine finger; other site 1048260004418 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1048260004419 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1048260004420 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1048260004421 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 1048260004422 Outer membrane efflux protein; Region: OEP; pfam02321 1048260004423 Outer membrane efflux protein; Region: OEP; pfam02321 1048260004424 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260004425 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260004426 putative active site [active] 1048260004427 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 1048260004428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260004429 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 1048260004430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260004431 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1048260004432 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 1048260004433 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1048260004434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048260004435 Walker A/P-loop; other site 1048260004436 ATP binding site [chemical binding]; other site 1048260004437 Q-loop/lid; other site 1048260004438 ABC transporter signature motif; other site 1048260004439 Walker B; other site 1048260004440 D-loop; other site 1048260004441 H-loop/switch region; other site 1048260004442 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1048260004443 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1048260004444 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1048260004445 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1048260004446 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260004447 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1048260004448 putative ADP-binding pocket [chemical binding]; other site 1048260004449 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 1048260004450 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260004451 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1048260004452 putative active site [active] 1048260004453 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 1048260004454 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260004455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 1048260004456 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1048260004457 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1048260004458 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1048260004459 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1048260004460 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1048260004461 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 1048260004462 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260004463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 1048260004464 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1048260004465 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260004466 GAF domain; Region: GAF; pfam01590 1048260004467 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1048260004468 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 1048260004469 putative active site [active] 1048260004470 heme pocket [chemical binding]; other site 1048260004471 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 1048260004472 dimer interface [polypeptide binding]; other site 1048260004473 phosphorylation site [posttranslational modification] 1048260004474 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 1048260004475 ATP binding site [chemical binding]; other site 1048260004476 Mg2+ binding site [ion binding]; other site 1048260004477 G-X-G motif; other site 1048260004478 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1048260004479 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 1048260004480 active site 1048260004481 phosphorylation site [posttranslational modification] 1048260004482 intermolecular recognition site; other site 1048260004483 dimerization interface [polypeptide binding]; other site 1048260004484 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 1048260004485 Walker A motif; other site 1048260004486 ATP binding site [chemical binding]; other site 1048260004487 Walker B motif; other site 1048260004488 arginine finger; other site 1048260004489 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260004490 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1048260004491 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048260004492 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1048260004493 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1048260004494 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1048260004495 DinB superfamily; Region: DinB_2; pfam12867 1048260004496 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1048260004497 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1048260004498 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 1048260004499 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1048260004500 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1048260004501 dimer interface [polypeptide binding]; other site 1048260004502 active site residues [active] 1048260004503 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1048260004504 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260004505 High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I...; Region: HMG-box; cl00082 1048260004506 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260004507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260004508 metal binding site [ion binding]; metal-binding site 1048260004509 active site 1048260004510 I-site; other site 1048260004511 PAS fold; Region: PAS_4; pfam08448 1048260004512 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 1048260004513 putative active site [active] 1048260004514 heme pocket [chemical binding]; other site 1048260004515 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1048260004516 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1048260004517 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 1048260004518 putative substrate translocation pore; other site 1048260004519 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1048260004520 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1048260004521 active site 1048260004522 FMN binding site [chemical binding]; other site 1048260004523 substrate binding site [chemical binding]; other site 1048260004524 homotetramer interface [polypeptide binding]; other site 1048260004525 catalytic residue [active] 1048260004526 EamA-like transporter family; Region: EamA; pfam00892 1048260004527 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1048260004528 EamA-like transporter family; Region: EamA; pfam00892 1048260004529 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1048260004530 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1048260004531 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1048260004532 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1048260004533 Low-spin heme binding site [chemical binding]; other site 1048260004534 D-pathway; other site 1048260004535 Putative water exit pathway; other site 1048260004536 Binuclear center (active site) [active] 1048260004537 K-pathway; other site 1048260004538 Putative proton exit pathway; other site 1048260004539 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 1048260004540 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1048260004541 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 1048260004542 active site 1048260004543 metal binding site [ion binding]; metal-binding site 1048260004544 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1048260004545 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 1048260004546 FeS/SAM binding site; other site 1048260004547 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1048260004548 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1048260004549 active site 1048260004550 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1048260004551 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1048260004552 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1048260004553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1048260004554 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 1048260004555 active site 1048260004556 phosphorylation site [posttranslational modification] 1048260004557 intermolecular recognition site; other site 1048260004558 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 1048260004559 Walker A motif; other site 1048260004560 ATP binding site [chemical binding]; other site 1048260004561 Walker B motif; other site 1048260004562 arginine finger; other site 1048260004563 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1048260004564 DNA-binding interface [nucleotide binding]; DNA binding site 1048260004565 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048260004566 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 1048260004567 dimerization interface [polypeptide binding]; other site 1048260004568 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 1048260004569 dimer interface [polypeptide binding]; other site 1048260004570 phosphorylation site [posttranslational modification] 1048260004571 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 1048260004572 ATP binding site [chemical binding]; other site 1048260004573 Mg2+ binding site [ion binding]; other site 1048260004574 G-X-G motif; other site 1048260004575 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1048260004576 Peptidase family M23; Region: Peptidase_M23; pfam01551 1048260004577 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1048260004578 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1048260004579 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1048260004580 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 1048260004581 active site 1048260004582 motif I; other site 1048260004583 motif II; other site 1048260004584 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1048260004585 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1048260004586 putative active site [active] 1048260004587 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1048260004588 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1048260004589 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1048260004590 CTP synthetase; Validated; Region: pyrG; PRK05380 1048260004591 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 1048260004592 Catalytic site [active] 1048260004593 active site 1048260004594 UTP binding site [chemical binding]; other site 1048260004595 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1048260004596 active site 1048260004597 putative oxyanion hole; other site 1048260004598 catalytic triad [active] 1048260004599 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1048260004600 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1048260004601 Ligand binding site; other site 1048260004602 oligomer interface; other site 1048260004603 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1048260004604 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1048260004605 putative ribose interaction site [chemical binding]; other site 1048260004606 putative ADP binding site [chemical binding]; other site 1048260004607 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1048260004608 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 1048260004609 Catalytic site [active] 1048260004610 GTP-binding protein LepA; Provisional; Region: PRK05433 1048260004611 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1048260004612 G1 box; other site 1048260004613 putative GEF interaction site [polypeptide binding]; other site 1048260004614 GTP/Mg2+ binding site [chemical binding]; other site 1048260004615 Switch I region; other site 1048260004616 G2 box; other site 1048260004617 G3 box; other site 1048260004618 Switch II region; other site 1048260004619 G4 box; other site 1048260004620 G5 box; other site 1048260004621 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1048260004622 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 1048260004623 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1048260004624 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1048260004625 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1048260004626 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1048260004627 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 1048260004628 dimer interface [polypeptide binding]; other site 1048260004629 motif 1; other site 1048260004630 active site 1048260004631 motif 2; other site 1048260004632 motif 3; other site 1048260004633 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 1048260004634 anticodon binding site; other site 1048260004635 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1048260004636 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1048260004637 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1048260004638 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1048260004639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1048260004640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1048260004641 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 1048260004642 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1048260004643 active site 1048260004644 catalytic tetrad [active] 1048260004645 Homeodomain-like domain; Region: HTH_23; pfam13384 1048260004646 Winged helix-turn helix; Region: HTH_29; pfam13551 1048260004647 Homeodomain-like domain; Region: HTH_32; pfam13565 1048260004648 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1048260004649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1048260004650 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1048260004651 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1048260004652 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1048260004653 minor groove reading motif; other site 1048260004654 helix-hairpin-helix signature motif; other site 1048260004655 substrate binding pocket [chemical binding]; other site 1048260004656 active site 1048260004657 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1048260004658 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1048260004659 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 1048260004660 Walker A motif; other site 1048260004661 ATP binding site [chemical binding]; other site 1048260004662 Walker B motif; other site 1048260004663 arginine finger; other site 1048260004664 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1048260004665 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1048260004666 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 1048260004667 putative dimer interface [polypeptide binding]; other site 1048260004668 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1048260004669 PCRF domain; Region: PCRF; pfam03462 1048260004670 RF-1 domain; Region: RF-1; pfam00472 1048260004671 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1048260004672 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1048260004673 putative active site [active] 1048260004674 catalytic triad [active] 1048260004675 putative dimer interface [polypeptide binding]; other site 1048260004676 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1048260004677 dimer interface [polypeptide binding]; other site 1048260004678 ATP-dependent DNA ligase; Provisional; Region: PRK01109 1048260004679 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 1048260004680 active site 1048260004681 DNA binding site [nucleotide binding] 1048260004682 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase; cd07893 1048260004683 DNA binding site [nucleotide binding] 1048260004684 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048260004685 Coenzyme A binding pocket [chemical binding]; other site 1048260004686 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1048260004687 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 1048260004688 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 1048260004689 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1048260004690 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 1048260004691 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 1048260004692 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 1048260004693 active site 1048260004694 GMP synthase; Reviewed; Region: guaA; PRK00074 1048260004695 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1048260004696 AMP/PPi binding site [chemical binding]; other site 1048260004697 candidate oxyanion hole; other site 1048260004698 catalytic triad [active] 1048260004699 potential glutamine specificity residues [chemical binding]; other site 1048260004700 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 1048260004701 ATP Binding subdomain [chemical binding]; other site 1048260004702 Ligand Binding sites [chemical binding]; other site 1048260004703 Dimerization subdomain; other site 1048260004704 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 1048260004705 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1048260004706 RNA binding surface [nucleotide binding]; other site 1048260004707 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1048260004708 active site 1048260004709 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1048260004710 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 1048260004711 dimer interface [polypeptide binding]; other site 1048260004712 anticodon binding site; other site 1048260004713 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1048260004714 homodimer interface [polypeptide binding]; other site 1048260004715 motif 1; other site 1048260004716 active site 1048260004717 motif 2; other site 1048260004718 GAD domain; Region: GAD; pfam02938 1048260004719 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1048260004720 motif 3; other site 1048260004721 glutamine synthetase, type I; Region: GlnA; TIGR00653 1048260004722 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1048260004723 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1048260004724 PAS domain S-box; Region: sensory_box; TIGR00229 1048260004725 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 1048260004726 putative active site [active] 1048260004727 heme pocket [chemical binding]; other site 1048260004728 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 1048260004729 PAS domain; Region: PAS_9; pfam13426 1048260004730 putative active site [active] 1048260004731 heme pocket [chemical binding]; other site 1048260004732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260004733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260004734 metal binding site [ion binding]; metal-binding site 1048260004735 active site 1048260004736 I-site; other site 1048260004737 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 1048260004738 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1048260004739 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048260004740 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1048260004741 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 1048260004742 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1048260004743 catalytic residue [active] 1048260004744 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1048260004745 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1048260004746 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1048260004747 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1048260004748 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1048260004749 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1048260004750 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1048260004751 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1048260004752 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1048260004753 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1048260004754 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1048260004755 IMP binding site; other site 1048260004756 dimer interface [polypeptide binding]; other site 1048260004757 partial ornithine binding site; other site 1048260004758 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1048260004759 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 1048260004760 FeS/SAM binding site; other site 1048260004761 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 1048260004762 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1048260004763 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1048260004764 catalytic site [active] 1048260004765 subunit interface [polypeptide binding]; other site 1048260004766 dihydroorotase; Validated; Region: pyrC; PRK09357 1048260004767 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 1048260004768 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 1048260004769 active site 1048260004770 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1048260004771 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1048260004772 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1048260004773 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1048260004774 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260004775 active site 1048260004776 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 1048260004777 nucleotide binding site/active site [active] 1048260004778 HIT family signature motif; other site 1048260004779 catalytic residue [active] 1048260004780 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1048260004781 FOG: CBS domain [General function prediction only]; Region: COG0517 1048260004782 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 1048260004783 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 1048260004784 putative substrate translocation pore; other site 1048260004785 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 1048260004786 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1048260004787 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 1048260004788 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1048260004789 MOFRL family; Region: MOFRL; pfam05161 1048260004790 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1048260004791 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1048260004792 tandem repeat interface [polypeptide binding]; other site 1048260004793 oligomer interface [polypeptide binding]; other site 1048260004794 active site residues [active] 1048260004795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1048260004796 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1048260004797 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1048260004798 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1048260004799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260004800 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1048260004801 Walker A/P-loop; other site 1048260004802 ATP binding site [chemical binding]; other site 1048260004803 Q-loop/lid; other site 1048260004804 ABC transporter signature motif; other site 1048260004805 Walker B; other site 1048260004806 D-loop; other site 1048260004807 H-loop/switch region; other site 1048260004808 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1048260004809 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 1048260004810 heme-binding residues [chemical binding]; other site 1048260004811 Cytochrome c; Region: Cytochrom_C; pfam00034 1048260004812 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1048260004813 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 1048260004814 heme bH binding site [chemical binding]; other site 1048260004815 intrachain domain interface; other site 1048260004816 Qi binding site; other site 1048260004817 heme bL binding site [chemical binding]; other site 1048260004818 interchain domain interface [polypeptide binding]; other site 1048260004819 Qo binding site; other site 1048260004820 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 1048260004821 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 1048260004822 iron-sulfur cluster [ion binding]; other site 1048260004823 [2Fe-2S] cluster binding site [ion binding]; other site 1048260004824 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1048260004825 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1048260004826 4Fe-4S binding domain; Region: Fer4; pfam00037 1048260004827 4Fe-4S binding domain; Region: Fer4; pfam00037 1048260004828 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1048260004829 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1048260004830 putative active site [active] 1048260004831 Zn binding site [ion binding]; other site 1048260004832 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1048260004833 OstA-like protein; Region: OstA; cl00844 1048260004834 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1048260004835 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1048260004836 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048260004837 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1048260004838 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1048260004839 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1048260004840 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 1048260004841 substrate binding site [chemical binding]; other site 1048260004842 active site 1048260004843 catalytic residues [active] 1048260004844 heterodimer interface [polypeptide binding]; other site 1048260004845 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1048260004846 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 1048260004847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260004848 catalytic residue [active] 1048260004849 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 1048260004850 active site 1048260004851 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 1048260004852 active site 1048260004853 ribulose/triose binding site [chemical binding]; other site 1048260004854 phosphate binding site [ion binding]; other site 1048260004855 substrate (anthranilate) binding pocket [chemical binding]; other site 1048260004856 product (indole) binding pocket [chemical binding]; other site 1048260004857 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1048260004858 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1048260004859 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1048260004860 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1048260004861 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1048260004862 glutamine binding [chemical binding]; other site 1048260004863 catalytic triad [active] 1048260004864 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1048260004865 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1048260004866 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1048260004867 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 1048260004868 PAS domain; Region: PAS_9; pfam13426 1048260004869 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1048260004870 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 1048260004871 Walker A motif; other site 1048260004872 ATP binding site [chemical binding]; other site 1048260004873 Walker B motif; other site 1048260004874 arginine finger; other site 1048260004875 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260004876 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1048260004877 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1048260004878 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 1048260004879 dimer interface [polypeptide binding]; other site 1048260004880 ADP-ribose binding site [chemical binding]; other site 1048260004881 active site 1048260004882 nudix motif; other site 1048260004883 metal binding site [ion binding]; metal-binding site 1048260004884 Protein of unknown function (DUF420); Region: DUF420; pfam04238 1048260004885 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1048260004886 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1048260004887 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1048260004888 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1048260004889 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1048260004890 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1048260004891 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1048260004892 Putative water exit pathway; other site 1048260004893 Putative proton exit pathway; other site 1048260004894 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1048260004895 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1048260004896 VIT family; Region: VIT1; pfam01988 1048260004897 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1048260004898 dimer interface [polypeptide binding]; other site 1048260004899 [2Fe-2S] cluster binding site [ion binding]; other site 1048260004900 homoserine kinase; Provisional; Region: PRK01212 1048260004901 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1048260004902 Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the...; Region: DHOD_DHPD_FMN; cd02810 1048260004903 active site 1048260004904 FMN binding site [chemical binding]; other site 1048260004905 substrate binding site [chemical binding]; other site 1048260004906 Pup-ligase protein; Region: Pup_ligase; pfam03136 1048260004907 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 1048260004908 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; cd01901 1048260004909 active site 1048260004910 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 1048260004911 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 1048260004912 active site 1048260004913 Pup-ligase protein; Region: Pup_ligase; pfam03136 1048260004914 proteasome ATPase; Region: pup_AAA; TIGR03689 1048260004915 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 1048260004916 Walker A motif; other site 1048260004917 ATP binding site [chemical binding]; other site 1048260004918 Walker B motif; other site 1048260004919 arginine finger; other site 1048260004920 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1048260004921 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1048260004922 trimer interface [polypeptide binding]; other site 1048260004923 active site 1048260004924 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1048260004925 trimer interface [polypeptide binding]; other site 1048260004926 active site 1048260004927 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1048260004928 putative FMN binding site [chemical binding]; other site 1048260004929 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1048260004930 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 1048260004931 FeS/SAM binding site; other site 1048260004932 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1048260004933 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1048260004934 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1048260004935 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1048260004936 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1048260004937 tRNA; other site 1048260004938 putative tRNA binding site [nucleotide binding]; other site 1048260004939 putative NADP binding site [chemical binding]; other site 1048260004940 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1048260004941 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1048260004942 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 1048260004943 domain interfaces; other site 1048260004944 active site 1048260004945 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1048260004946 active site 1048260004947 SAM binding site [chemical binding]; other site 1048260004948 homodimer interface [polypeptide binding]; other site 1048260004949 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1048260004950 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 1048260004951 active site 1048260004952 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 1048260004953 dimer interface [polypeptide binding]; other site 1048260004954 active site 1048260004955 Schiff base residues; other site 1048260004956 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1048260004957 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1048260004958 active site 1048260004959 Riboflavin kinase; Region: Flavokinase; pfam01687 1048260004960 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1048260004961 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 1048260004962 Ligand Binding Site [chemical binding]; other site 1048260004963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048260004964 active site 1048260004965 FtsH Extracellular; Region: FtsH_ext; pfam06480 1048260004966 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1048260004967 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 1048260004968 Walker A motif; other site 1048260004969 ATP binding site [chemical binding]; other site 1048260004970 Walker B motif; other site 1048260004971 arginine finger; other site 1048260004972 Peptidase family M41; Region: Peptidase_M41; pfam01434 1048260004973 dihydropteroate synthase; Region: DHPS; TIGR01496 1048260004974 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 1048260004975 substrate binding pocket [chemical binding]; other site 1048260004976 dimer interface [polypeptide binding]; other site 1048260004977 inhibitor binding site; inhibition site 1048260004978 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1048260004979 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1048260004980 YbbR-like protein; Region: YbbR; pfam07949 1048260004981 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1048260004982 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1048260004983 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1048260004984 Isochorismatase family; Region: Isochorismatase; pfam00857 1048260004985 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1048260004986 catalytic triad [active] 1048260004987 conserved cis-peptide bond; other site 1048260004988 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048260004989 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1048260004990 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1048260004991 Helix-turn-helix domain; Region: HTH_28; pfam13518 1048260004992 Winged helix-turn helix; Region: HTH_29; pfam13551 1048260004993 Homeodomain-like domain; Region: HTH_32; pfam13565 1048260004994 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1048260004995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1048260004996 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1048260004997 LPP20 lipoprotein; Region: LPP20; pfam02169 1048260004998 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1048260004999 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1048260005000 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1048260005001 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1048260005002 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260005003 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260005004 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1048260005005 DNA photolyase; Region: DNA_photolyase; pfam00875 1048260005006 voltage-gated potassium channel; Provisional; Region: PRK10537 1048260005007 Ion channel; Region: Ion_trans_2; pfam07885 1048260005008 TrkA-N domain; Region: TrkA_N; pfam02254 1048260005009 Pirin-related protein [General function prediction only]; Region: COG1741 1048260005010 Pirin; Region: Pirin; pfam02678 1048260005011 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1048260005012 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1048260005013 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1048260005014 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1048260005015 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1048260005016 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1048260005017 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1048260005018 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1048260005019 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1048260005020 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1048260005021 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1048260005022 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048260005023 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 1048260005024 active site 1048260005025 phosphorylation site [posttranslational modification] 1048260005026 intermolecular recognition site; other site 1048260005027 dimerization interface [polypeptide binding]; other site 1048260005028 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 1048260005029 DNA binding site [nucleotide binding] 1048260005030 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1048260005031 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1048260005032 AAA domain; Region: AAA_30; pfam13604 1048260005033 Family description; Region: UvrD_C_2; pfam13538 1048260005034 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 1048260005035 Family description; Region: UvrD_C_2; pfam13538 1048260005036 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1048260005037 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1048260005038 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1048260005039 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1048260005040 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 1048260005041 putative NAD(P) binding site [chemical binding]; other site 1048260005042 putative substrate binding site [chemical binding]; other site 1048260005043 catalytic Zn binding site [ion binding]; other site 1048260005044 structural Zn binding site [ion binding]; other site 1048260005045 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048260005046 MarR family; Region: MarR; pfam01047 1048260005047 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1048260005048 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260005049 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 1048260005050 Protein export membrane protein; Region: SecD_SecF; cl14618 1048260005051 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1048260005052 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260005053 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260005054 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260005055 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1048260005056 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1048260005057 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1048260005058 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1048260005059 GAF domain; Region: GAF; pfam01590 1048260005060 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1048260005061 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1048260005062 metal binding site [ion binding]; metal-binding site 1048260005063 active site 1048260005064 I-site; other site 1048260005065 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1048260005066 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 1048260005067 putative dimer interface [polypeptide binding]; other site 1048260005068 [2Fe-2S] cluster binding site [ion binding]; other site 1048260005069 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1048260005070 SLBB domain; Region: SLBB; pfam10531 1048260005071 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1048260005072 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1048260005073 DNA methylase; Region: N6_N4_Mtase; cl17433 1048260005074 DNA methylase; Region: N6_N4_Mtase; cl17433 1048260005075 Competence protein; Region: Competence; pfam03772 1048260005076 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 1048260005077 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 1048260005078 active site 1048260005079 substrate binding site [chemical binding]; other site 1048260005080 metal binding site [ion binding]; metal-binding site 1048260005081 Predicted transcriptional regulator [Transcription]; Region: COG1959 1048260005082 Transcriptional regulator; Region: Rrf2; pfam02082 1048260005083 Transcriptional regulator; Region: Rrf2; cl17282 1048260005084 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1048260005085 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1048260005086 FMN binding site [chemical binding]; other site 1048260005087 active site 1048260005088 substrate binding site [chemical binding]; other site 1048260005089 catalytic residue [active] 1048260005090 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1048260005091 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1048260005092 ligand binding site [chemical binding]; other site 1048260005093 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 1048260005094 putative active site [active] 1048260005095 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1048260005096 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 1048260005097 Walker A motif; other site 1048260005098 ATP binding site [chemical binding]; other site 1048260005099 Walker B motif; other site 1048260005100 arginine finger; other site 1048260005101 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260005102 Septum formation initiator; Region: DivIC; cl17659 1048260005103 enolase; Provisional; Region: eno; PRK00077 1048260005104 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 1048260005105 dimer interface [polypeptide binding]; other site 1048260005106 metal binding site [ion binding]; metal-binding site 1048260005107 substrate binding pocket [chemical binding]; other site 1048260005108 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1048260005109 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1048260005110 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1048260005111 GatB domain; Region: GatB_Yqey; smart00845 1048260005112 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1048260005113 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1048260005114 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1048260005115 tetramerization interface [polypeptide binding]; other site 1048260005116 active site 1048260005117 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1048260005118 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1048260005119 Part of AAA domain; Region: AAA_19; pfam13245 1048260005120 Family description; Region: UvrD_C_2; pfam13538 1048260005121 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1048260005122 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1048260005123 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1048260005124 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1048260005125 glutaminase active site [active] 1048260005126 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 1048260005127 dimer interface [polypeptide binding]; other site 1048260005128 active site 1048260005129 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1048260005130 dimer interface [polypeptide binding]; other site 1048260005131 active site 1048260005132 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1048260005133 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1048260005134 Substrate binding site; other site 1048260005135 Mg++ binding site; other site 1048260005136 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1048260005137 active site 1048260005138 substrate binding site [chemical binding]; other site 1048260005139 CoA binding site [chemical binding]; other site 1048260005140 Protein of unknown function (DUF502); Region: DUF502; cl01107 1048260005141 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_20; cd07254 1048260005142 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1048260005143 putative metal binding site [ion binding]; other site 1048260005144 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 1048260005145 dimerization interface [polypeptide binding]; other site 1048260005146 putative DNA binding site [nucleotide binding]; other site 1048260005147 putative Zn2+ binding site [ion binding]; other site 1048260005148 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1048260005149 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1048260005150 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1048260005151 Predicted membrane protein [Function unknown]; Region: COG2259 1048260005152 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048260005153 MarR family; Region: MarR; pfam01047 1048260005154 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 1048260005155 intersubunit interface [polypeptide binding]; other site 1048260005156 active site 1048260005157 Zn2+ binding site [ion binding]; other site 1048260005158 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1048260005159 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1048260005160 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 1048260005161 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 1048260005162 dimer interface [polypeptide binding]; other site 1048260005163 active site 1048260005164 catalytic residue [active] 1048260005165 metal binding site [ion binding]; metal-binding site 1048260005166 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1048260005167 Cupin domain; Region: Cupin_2; cl17218 1048260005168 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1048260005169 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 1048260005170 dimer interface [polypeptide binding]; other site 1048260005171 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1048260005172 catalytic triad [active] 1048260005173 peroxidatic and resolving cysteines [active] 1048260005174 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1048260005175 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1048260005176 metal binding site 2 [ion binding]; metal-binding site 1048260005177 putative DNA binding helix; other site 1048260005178 metal binding site 1 [ion binding]; metal-binding site 1048260005179 dimer interface [polypeptide binding]; other site 1048260005180 structural Zn2+ binding site [ion binding]; other site 1048260005181 thymidylate kinase; Validated; Region: tmk; PRK00698 1048260005182 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 1048260005183 TMP-binding site; other site 1048260005184 ATP-binding site [chemical binding]; other site 1048260005185 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1048260005186 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1048260005187 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1048260005188 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1048260005189 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1048260005190 active site 1048260005191 HIGH motif; other site 1048260005192 KMSKS motif; other site 1048260005193 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1048260005194 anticodon binding site; other site 1048260005195 tRNA binding surface [nucleotide binding]; other site 1048260005196 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1048260005197 dimer interface [polypeptide binding]; other site 1048260005198 putative tRNA-binding site [nucleotide binding]; other site 1048260005199 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1048260005200 active site 1048260005201 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1048260005202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048260005203 Coenzyme A binding pocket [chemical binding]; other site 1048260005204 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1048260005205 amino acid transporter; Region: 2A0306; TIGR00909 1048260005206 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1048260005207 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1048260005208 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1048260005209 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 1048260005210 Ligand Binding Site [chemical binding]; other site 1048260005211 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1048260005212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048260005213 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1048260005214 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1048260005215 Na binding site [ion binding]; other site 1048260005216 GTP-binding protein Der; Reviewed; Region: PRK00093 1048260005217 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1048260005218 G1 box; other site 1048260005219 GTP/Mg2+ binding site [chemical binding]; other site 1048260005220 Switch I region; other site 1048260005221 G2 box; other site 1048260005222 Switch II region; other site 1048260005223 G3 box; other site 1048260005224 G4 box; other site 1048260005225 G5 box; other site 1048260005226 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1048260005227 G1 box; other site 1048260005228 GTP/Mg2+ binding site [chemical binding]; other site 1048260005229 Switch I region; other site 1048260005230 G2 box; other site 1048260005231 G3 box; other site 1048260005232 Switch II region; other site 1048260005233 G4 box; other site 1048260005234 G5 box; other site 1048260005235 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1048260005236 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1048260005237 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1048260005238 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1048260005239 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 1048260005240 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1048260005241 Walker A motif; other site 1048260005242 ATP binding site [chemical binding]; other site 1048260005243 Walker B motif; other site 1048260005244 arginine finger; other site 1048260005245 cytochrome c oxidase subunit; Provisional; Region: PTZ00043 1048260005246 N-acetylglutamate synthase; Validated; Region: PRK05279 1048260005247 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1048260005248 nucleotide binding site [chemical binding]; other site 1048260005249 substrate binding site [chemical binding]; other site 1048260005250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048260005251 Coenzyme A binding pocket [chemical binding]; other site 1048260005252 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1048260005253 PAS fold; Region: PAS_4; pfam08448 1048260005254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1048260005255 dimer interface [polypeptide binding]; other site 1048260005256 putative CheW interface [polypeptide binding]; other site 1048260005257 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1048260005258 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 1048260005259 S-adenosylmethionine binding site [chemical binding]; other site 1048260005260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048260005261 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1048260005262 NAD(P) binding site [chemical binding]; other site 1048260005263 active site 1048260005264 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 1048260005265 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1048260005266 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1048260005267 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1048260005268 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1048260005269 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1048260005270 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1048260005271 active site 1048260005272 substrate binding site [chemical binding]; other site 1048260005273 cosubstrate binding site; other site 1048260005274 catalytic site [active] 1048260005275 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1048260005276 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 1048260005277 dimerization interface [polypeptide binding]; other site 1048260005278 putative ATP binding site [chemical binding]; other site 1048260005279 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1048260005280 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 1048260005281 dimerization interface [polypeptide binding]; other site 1048260005282 active site 1048260005283 metal binding site [ion binding]; metal-binding site 1048260005284 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 1048260005285 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1048260005286 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 1048260005287 dimer interface [polypeptide binding]; other site 1048260005288 active site 1048260005289 acyl carrier protein; Provisional; Region: acpP; PRK00982 1048260005290 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1048260005291 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1048260005292 NAD(P) binding site [chemical binding]; other site 1048260005293 homotetramer interface [polypeptide binding]; other site 1048260005294 homodimer interface [polypeptide binding]; other site 1048260005295 active site 1048260005296 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1048260005297 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1048260005298 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1048260005299 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 1048260005300 dimer interface [polypeptide binding]; other site 1048260005301 active site 1048260005302 CoA binding pocket [chemical binding]; other site 1048260005303 putative phosphate acyltransferase; Provisional; Region: PRK05331 1048260005304 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1048260005305 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1048260005306 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1048260005307 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 1048260005308 dimer interface [polypeptide binding]; other site 1048260005309 motif 1; other site 1048260005310 active site 1048260005311 motif 2; other site 1048260005312 motif 3; other site 1048260005313 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 1048260005314 anticodon binding site; other site 1048260005315 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1048260005316 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1048260005317 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1048260005318 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 1048260005319 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1048260005320 active site 1048260005321 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 1048260005322 protein binding site [polypeptide binding]; other site 1048260005323 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 1048260005324 putative substrate binding region [chemical binding]; other site 1048260005325 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1048260005326 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1048260005327 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1048260005328 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1048260005329 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1048260005330 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1048260005331 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 1048260005332 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1048260005333 catalytic residue [active] 1048260005334 putative FPP diphosphate binding site; other site 1048260005335 putative FPP binding hydrophobic cleft; other site 1048260005336 dimer interface [polypeptide binding]; other site 1048260005337 putative IPP diphosphate binding site; other site 1048260005338 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1048260005339 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 1048260005340 Potassium binding sites [ion binding]; other site 1048260005341 Cesium cation binding sites [ion binding]; other site 1048260005342 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1048260005343 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1048260005344 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1048260005345 Protein of unknown function (DUF465); Region: DUF465; cl01070 1048260005346 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1048260005347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048260005348 Coenzyme A binding pocket [chemical binding]; other site 1048260005349 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1048260005350 DNA repair protein RadA; Provisional; Region: PRK11823 1048260005351 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 1048260005352 Walker A motif; other site 1048260005353 ATP binding site [chemical binding]; other site 1048260005354 Walker B motif; other site 1048260005355 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1048260005356 peptidase PmbA; Provisional; Region: PRK11040 1048260005357 protease TldD; Provisional; Region: tldD; PRK10735 1048260005358 Beta-lactamase; Region: Beta-lactamase; pfam00144 1048260005359 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1048260005360 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1048260005361 active site lid residues [active] 1048260005362 substrate binding pocket [chemical binding]; other site 1048260005363 catalytic residues [active] 1048260005364 substrate-Mg2+ binding site; other site 1048260005365 aspartate-rich region 1; other site 1048260005366 aspartate-rich region 2; other site 1048260005367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1048260005368 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1048260005369 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1048260005370 active site lid residues [active] 1048260005371 substrate binding pocket [chemical binding]; other site 1048260005372 catalytic residues [active] 1048260005373 substrate-Mg2+ binding site; other site 1048260005374 aspartate-rich region 1; other site 1048260005375 aspartate-rich region 2; other site 1048260005376 Creatinine amidohydrolase; Region: Creatininase; cl00618 1048260005377 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1048260005378 ParA-like protein; Provisional; Region: PHA02518 1048260005379 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 1048260005380 P-loop; other site 1048260005381 Magnesium ion binding site [ion binding]; other site 1048260005382 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1048260005383 dimer interface [polypeptide binding]; other site 1048260005384 catalytic triad [active] 1048260005385 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1048260005386 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 1048260005387 motif I; other site 1048260005388 motif II; other site 1048260005389 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1048260005390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 1048260005391 phage shock protein A; Region: phageshock_pspA; TIGR02977 1048260005392 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 1048260005393 binding surface 1048260005394 TPR motif; other site 1048260005395 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 1048260005396 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 1048260005397 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 1048260005398 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1048260005399 Int/Topo IB signature motif; other site 1048260005400 DNA binding site [nucleotide binding] 1048260005401 active site 1048260005402 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1048260005403 Protein of unknown function DUF262; Region: DUF262; pfam03235 1048260005404 Protein of unknown function DUF262; Region: DUF262; pfam03235 1048260005405 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 1048260005406 non-specific DNA binding site [nucleotide binding]; other site 1048260005407 salt bridge; other site 1048260005408 sequence-specific DNA binding site [nucleotide binding]; other site 1048260005409 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1048260005410 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1048260005411 cofactor binding site; other site 1048260005412 DNA binding site [nucleotide binding] 1048260005413 substrate interaction site [chemical binding]; other site 1048260005414 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1048260005415 additional DNA contacts [nucleotide binding]; other site 1048260005416 mismatch recognition site; other site 1048260005417 active site 1048260005418 zinc binding site [ion binding]; other site 1048260005419 DNA intercalation site [nucleotide binding]; other site 1048260005420 DNA binding domains of BfiI, EcoRII and plant B3 proteins; Region: BfiI_C_EcoRII_N_B3; cl15242 1048260005421 DNA binding site [nucleotide binding] 1048260005422 EcoRII C terminal; Region: EcoRII-C; pfam09019 1048260005423 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 1048260005424 transposase/IS protein; Provisional; Region: PRK09183 1048260005425 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 1048260005426 Walker A motif; other site 1048260005427 ATP binding site [chemical binding]; other site 1048260005428 Walker B motif; other site 1048260005429 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1048260005430 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 1048260005431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1048260005432 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048260005433 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 1048260005434 putative substrate translocation pore; other site 1048260005435 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 1048260005436 putative substrate translocation pore; other site 1048260005437 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1048260005438 active site 1048260005439 catalytic site [active] 1048260005440 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1048260005441 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1048260005442 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260005443 Zn2+ binding site [ion binding]; other site 1048260005444 Mg2+ binding site [ion binding]; other site 1048260005445 lipoyl synthase; Provisional; Region: PRK05481 1048260005446 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 1048260005447 FeS/SAM binding site; other site 1048260005448 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 1048260005449 catalytic core [active] 1048260005450 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1048260005451 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1048260005452 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 1048260005453 ATP binding site [chemical binding]; other site 1048260005454 Mg++ binding site [ion binding]; other site 1048260005455 motif III; other site 1048260005456 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 1048260005457 nucleotide binding region [chemical binding]; other site 1048260005458 ATP-binding site [chemical binding]; other site 1048260005459 glutamate racemase; Provisional; Region: PRK00865 1048260005460 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1048260005461 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1048260005462 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 1048260005463 active site 1048260005464 dimerization interface [polypeptide binding]; other site 1048260005465 ribonuclease PH; Reviewed; Region: rph; PRK00173 1048260005466 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1048260005467 hexamer interface [polypeptide binding]; other site 1048260005468 active site 1048260005469 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1048260005470 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1048260005471 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1048260005472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1048260005473 Walker A/P-loop; other site 1048260005474 ATP binding site [chemical binding]; other site 1048260005475 Q-loop/lid; other site 1048260005476 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1048260005477 ABC transporter signature motif; other site 1048260005478 Walker B; other site 1048260005479 D-loop; other site 1048260005480 ABC transporter; Region: ABC_tran_2; pfam12848 1048260005481 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1048260005482 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1048260005483 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 1048260005484 putative dimer interface [polypeptide binding]; other site 1048260005485 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1048260005486 pseudouridine synthase; Region: TIGR00093 1048260005487 active site 1048260005488 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1048260005489 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 1048260005490 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1048260005491 catalytic residue [active] 1048260005492 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1048260005493 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048260005494 Zn2+ binding site [ion binding]; other site 1048260005495 Mg2+ binding site [ion binding]; other site 1048260005496 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1048260005497 RNA/DNA hybrid binding site [nucleotide binding]; other site 1048260005498 active site 1048260005499 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1048260005500 Putative zinc ribbon domain; Region: DUF164; pfam02591 1048260005501 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1048260005502 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1048260005503 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1048260005504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1048260005505 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1048260005506 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 1048260005507 DNA binding residues [nucleotide binding] 1048260005508 DNA primase, catalytic core; Region: dnaG; TIGR01391 1048260005509 CHC2 zinc finger; Region: zf-CHC2; cl17510 1048260005510 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1048260005511 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 1048260005512 active site 1048260005513 metal binding site [ion binding]; metal-binding site 1048260005514 interdomain interaction site; other site 1048260005515 Yqey-like protein; Region: YqeY; pfam09424 1048260005516 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1048260005517 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 1048260005518 IHF dimer interface [polypeptide binding]; other site 1048260005519 IHF - DNA interface [nucleotide binding]; other site 1048260005520 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1048260005521 nucleotide binding site/active site [active] 1048260005522 HIT family signature motif; other site 1048260005523 catalytic residue [active] 1048260005524 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1048260005525 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1048260005526 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1048260005527 metal binding site [ion binding]; metal-binding site 1048260005528 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 1048260005529 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1048260005530 substrate binding site [chemical binding]; other site 1048260005531 glutamase interaction surface [polypeptide binding]; other site 1048260005532 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 1048260005533 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1048260005534 catalytic residues [active] 1048260005535 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1048260005536 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1048260005537 putative active site [active] 1048260005538 oxyanion strand; other site 1048260005539 catalytic triad [active] 1048260005540 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1048260005541 putative active site pocket [active] 1048260005542 4-fold oligomerization interface [polypeptide binding]; other site 1048260005543 metal binding residues [ion binding]; metal-binding site 1048260005544 3-fold/trimer interface [polypeptide binding]; other site 1048260005545 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1048260005546 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 1048260005547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260005548 homodimer interface [polypeptide binding]; other site 1048260005549 catalytic residue [active] 1048260005550 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1048260005551 histidinol dehydrogenase; Region: hisD; TIGR00069 1048260005552 NAD binding site [chemical binding]; other site 1048260005553 dimerization interface [polypeptide binding]; other site 1048260005554 product binding site; other site 1048260005555 substrate binding site [chemical binding]; other site 1048260005556 zinc binding site [ion binding]; other site 1048260005557 catalytic residues [active] 1048260005558 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1048260005559 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1048260005560 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1048260005561 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 1048260005562 hinge; other site 1048260005563 active site 1048260005564 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1048260005565 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 1048260005566 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 1048260005567 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1048260005568 PCRF domain; Region: PCRF; pfam03462 1048260005569 RF-1 domain; Region: RF-1; pfam00472 1048260005570 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1048260005571 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1048260005572 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1048260005573 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1048260005574 RNA binding site [nucleotide binding]; other site 1048260005575 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1048260005576 multimer interface [polypeptide binding]; other site 1048260005577 Walker A motif; other site 1048260005578 ATP binding site [chemical binding]; other site 1048260005579 Walker B motif; other site 1048260005580 Cytochrome c; Region: Cytochrom_C; cl11414 1048260005581 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1048260005582 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1048260005583 active site 1048260005584 metal binding site [ion binding]; metal-binding site 1048260005585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1048260005586 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048260005587 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048260005588 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1048260005589 metal binding site [ion binding]; metal-binding site 1048260005590 active site 1048260005591 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1048260005592 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1048260005593 NAD(P) binding site [chemical binding]; other site 1048260005594 catalytic residues [active] 1048260005595 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 1048260005596 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1048260005597 PhoU domain; Region: PhoU; pfam01895 1048260005598 PhoU domain; Region: PhoU; pfam01895 1048260005599 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1048260005600 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1048260005601 Walker A/P-loop; other site 1048260005602 ATP binding site [chemical binding]; other site 1048260005603 Q-loop/lid; other site 1048260005604 ABC transporter signature motif; other site 1048260005605 Walker B; other site 1048260005606 D-loop; other site 1048260005607 H-loop/switch region; other site 1048260005608 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1048260005609 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 1048260005610 ABC-ATPase subunit interface; other site 1048260005611 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1048260005612 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 1048260005613 dimer interface [polypeptide binding]; other site 1048260005614 conserved gate region; other site 1048260005615 putative PBP binding loops; other site 1048260005616 ABC-ATPase subunit interface; other site 1048260005617 PBP superfamily domain; Region: PBP_like_2; cl17296 1048260005618 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048260005619 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 1048260005620 active site 1048260005621 phosphorylation site [posttranslational modification] 1048260005622 intermolecular recognition site; other site 1048260005623 dimerization interface [polypeptide binding]; other site 1048260005624 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 1048260005625 DNA binding site [nucleotide binding] 1048260005626 Domain of unknown function DUF77; Region: DUF77; pfam01910 1048260005627 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1048260005628 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 1048260005629 GDP-binding site [chemical binding]; other site 1048260005630 ACT binding site; other site 1048260005631 IMP binding site; other site 1048260005632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 1048260005633 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 1048260005634 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1048260005635 NADPH bind site [chemical binding]; other site 1048260005636 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1048260005637 putative FMN binding site [chemical binding]; other site 1048260005638 NADPH bind site [chemical binding]; other site 1048260005639 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1048260005640 ABC1 family; Region: ABC1; pfam03109 1048260005641 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 1048260005642 active site 1048260005643 ATP binding site [chemical binding]; other site 1048260005644 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 1048260005645 hypothetical protein; Reviewed; Region: PRK00024 1048260005646 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1048260005647 MPN+ (JAMM) motif; other site 1048260005648 Zinc-binding site [ion binding]; other site 1048260005649 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 1048260005650 active site 1048260005651 Flagellin N-methylase; Region: FliB; pfam03692 1048260005652 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1048260005653 PQQ-like domain; Region: PQQ_2; pfam13360 1048260005654 Trp docking motif [polypeptide binding]; other site 1048260005655 active site 1048260005656 Transglycosylase; Region: Transgly; pfam00912 1048260005657 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1048260005658 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1048260005659 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1048260005660 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260005661 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 1048260005662 TPR motif; other site 1048260005663 binding surface 1048260005664 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 1048260005665 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 1048260005666 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1048260005667 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1048260005668 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1048260005669 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1048260005670 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1048260005671 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1048260005672 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 1048260005673 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NuoL; COG1009 1048260005674 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1048260005675 Nif-specific regulatory protein; Region: nifA; TIGR01817 1048260005676 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1048260005677 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 1048260005678 Walker A motif; other site 1048260005679 ATP binding site [chemical binding]; other site 1048260005680 Walker B motif; other site 1048260005681 arginine finger; other site 1048260005682 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260005683 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1048260005684 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1048260005685 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260005686 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260005687 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260005688 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1048260005689 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1048260005690 FtsX-like permease family; Region: FtsX; pfam02687 1048260005691 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1048260005692 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048260005693 Walker A/P-loop; other site 1048260005694 ATP binding site [chemical binding]; other site 1048260005695 Q-loop/lid; other site 1048260005696 ABC transporter signature motif; other site 1048260005697 Walker B; other site 1048260005698 D-loop; other site 1048260005699 H-loop/switch region; other site 1048260005700 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 1048260005701 dimer interface [polypeptide binding]; other site 1048260005702 substrate binding site [chemical binding]; other site 1048260005703 metal binding sites [ion binding]; metal-binding site 1048260005704 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1048260005705 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1048260005706 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1048260005707 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1048260005708 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260005709 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 1048260005710 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1048260005711 putative active site [active] 1048260005712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1048260005713 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 1048260005714 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1048260005715 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1048260005716 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 1048260005717 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048260005718 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 1048260005719 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1048260005720 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 1048260005721 S-adenosylmethionine binding site [chemical binding]; other site 1048260005722 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 1048260005723 binding surface 1048260005724 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260005725 TPR motif; other site 1048260005726 TPR repeat; Region: TPR_11; pfam13414 1048260005727 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 1048260005728 binding surface 1048260005729 TPR motif; other site 1048260005730 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1048260005731 Flagellar protein FliS; Region: FliS; cl00654 1048260005732 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1048260005733 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1048260005734 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1048260005735 flagellin; Provisional; Region: PRK12802 1048260005736 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1048260005737 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1048260005738 FliW protein; Region: FliW; pfam02623 1048260005739 Global regulator protein family; Region: CsrA; pfam02599 1048260005740 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 1048260005741 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1048260005742 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 1048260005743 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1048260005744 FlgN protein; Region: FlgN; pfam05130 1048260005745 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1048260005746 flagellin; Provisional; Region: PRK12802 1048260005747 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1048260005748 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1048260005749 Rod binding protein; Region: Rod-binding; pfam10135 1048260005750 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1048260005751 Flagellar P-ring protein; Region: FlgI; pfam02119 1048260005752 Flagellar L-ring protein; Region: FlgH; cl17277 1048260005753 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1048260005754 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1048260005755 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1048260005756 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1048260005757 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1048260005758 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1048260005759 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1048260005760 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1048260005761 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1048260005762 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1048260005763 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1048260005764 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1048260005765 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1048260005766 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1048260005767 dimer interface [polypeptide binding]; other site 1048260005768 active site 1048260005769 catalytic residue [active] 1048260005770 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1048260005771 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1048260005772 active site 1048260005773 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1048260005774 substrate binding site [chemical binding]; other site 1048260005775 catalytic residues [active] 1048260005776 dimer interface [polypeptide binding]; other site 1048260005777 argininosuccinate lyase; Provisional; Region: PRK00855 1048260005778 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1048260005779 active sites [active] 1048260005780 tetramer interface [polypeptide binding]; other site 1048260005781 argininosuccinate synthase; Provisional; Region: PRK13820 1048260005782 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1048260005783 ANP binding site [chemical binding]; other site 1048260005784 Substrate Binding Site II [chemical binding]; other site 1048260005785 Substrate Binding Site I [chemical binding]; other site 1048260005786 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1048260005787 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1048260005788 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1048260005789 acetylornithine aminotransferase; Provisional; Region: PRK02627 1048260005790 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 1048260005791 inhibitor-cofactor binding pocket; inhibition site 1048260005792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260005793 catalytic residue [active] 1048260005794 Ion channel; Region: Ion_trans_2; pfam07885 1048260005795 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1048260005796 TrkA-N domain; Region: TrkA_N; pfam02254 1048260005797 TrkA-C domain; Region: TrkA_C; pfam02080 1048260005798 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 1048260005799 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048260005800 putative substrate translocation pore; other site 1048260005801 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1048260005802 UbiA prenyltransferase family; Region: UbiA; pfam01040 1048260005803 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 1048260005804 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1048260005805 FeS/SAM binding site; other site 1048260005806 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1048260005807 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 1048260005808 S-adenosylmethionine binding site [chemical binding]; other site 1048260005809 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1048260005810 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1048260005811 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1048260005812 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 1048260005813 TMP-binding site; other site 1048260005814 ATP-binding site [chemical binding]; other site 1048260005815 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1048260005816 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 1048260005817 TMP-binding site; other site 1048260005818 ATP-binding site [chemical binding]; other site 1048260005819 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1048260005820 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1048260005821 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 1048260005822 dimer interface [polypeptide binding]; other site 1048260005823 active site 1048260005824 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1048260005825 folate binding site [chemical binding]; other site 1048260005826 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1048260005827 ATP cone domain; Region: ATP-cone; pfam03477 1048260005828 primosome assembly protein PriA; Validated; Region: PRK05580 1048260005829 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 1048260005830 ATP binding site [chemical binding]; other site 1048260005831 putative Mg++ binding site [ion binding]; other site 1048260005832 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1048260005833 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1048260005834 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1048260005835 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1048260005836 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 1048260005837 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1048260005838 catalytic residues [active] 1048260005839 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 1048260005840 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1048260005841 catalytic residues [active] 1048260005842 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1048260005843 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1048260005844 ResB-like family; Region: ResB; pfam05140 1048260005845 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1048260005846 mce related protein; Region: MCE; pfam02470 1048260005847 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1048260005848 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1048260005849 Walker A/P-loop; other site 1048260005850 ATP binding site [chemical binding]; other site 1048260005851 Q-loop/lid; other site 1048260005852 ABC transporter signature motif; other site 1048260005853 Walker B; other site 1048260005854 D-loop; other site 1048260005855 H-loop/switch region; other site 1048260005856 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1048260005857 Permease; Region: Permease; pfam02405 1048260005858 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1048260005859 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1048260005860 active site 1048260005861 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1048260005862 dimer interface [polypeptide binding]; other site 1048260005863 substrate binding site [chemical binding]; other site 1048260005864 catalytic residues [active] 1048260005865 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1048260005866 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 1048260005867 hinge region; other site 1048260005868 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 1048260005869 putative nucleotide binding site [chemical binding]; other site 1048260005870 uridine monophosphate binding site [chemical binding]; other site 1048260005871 homohexameric interface [polypeptide binding]; other site 1048260005872 elongation factor Ts; Reviewed; Region: tsf; PRK12332 1048260005873 UBA/TS-N domain; Region: UBA; pfam00627 1048260005874 Elongation factor TS; Region: EF_TS; pfam00889 1048260005875 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 1048260005876 rRNA interaction site [nucleotide binding]; other site 1048260005877 S8 interaction site; other site 1048260005878 putative laminin-1 binding site; other site 1048260005879 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 1048260005880 heterotetramer interface [polypeptide binding]; other site 1048260005881 active site pocket [active] 1048260005882 cleavage site 1048260005883 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1048260005884 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1048260005885 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1048260005886 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 1048260005887 23S rRNA interface [nucleotide binding]; other site 1048260005888 L3 interface [polypeptide binding]; other site 1048260005889 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1048260005890 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1048260005891 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 1048260005892 FeS/SAM binding site; other site 1048260005893 Baculoviral E56 protein, specific to ODV envelope; Region: Baculo_E56; pfam04639 1048260005894 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1048260005895 Dihydroneopterin aldolase; Region: FolB; pfam02152 1048260005896 active site 1048260005897 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1048260005898 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 1048260005899 homodimer interface [polypeptide binding]; other site 1048260005900 oligonucleotide binding site [chemical binding]; other site 1048260005901 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1048260005902 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1048260005903 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1048260005904 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1048260005905 rod shape-determining protein MreC; Provisional; Region: PRK13922 1048260005906 rod shape-determining protein MreC; Region: MreC; pfam04085 1048260005907 rod shape-determining protein MreB; Provisional; Region: PRK13927 1048260005908 MreB and similar proteins; Region: MreB_like; cd10225 1048260005909 nucleotide binding site [chemical binding]; other site 1048260005910 Mg binding site [ion binding]; other site 1048260005911 putative protofilament interaction site [polypeptide binding]; other site 1048260005912 RodZ interaction site [polypeptide binding]; other site 1048260005913 RDD family; Region: RDD; pfam06271 1048260005914 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1048260005915 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 1048260005916 substrate binding site [chemical binding]; other site 1048260005917 hexamer interface [polypeptide binding]; other site 1048260005918 metal binding site [ion binding]; metal-binding site 1048260005919 heat shock protein HtpX; Provisional; Region: PRK03982 1048260005920 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1048260005921 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1048260005922 putative active site [active] 1048260005923 substrate binding site [chemical binding]; other site 1048260005924 putative cosubstrate binding site; other site 1048260005925 catalytic site [active] 1048260005926 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1048260005927 substrate binding site [chemical binding]; other site 1048260005928 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 1048260005929 active site 1048260005930 catalytic residues [active] 1048260005931 metal binding site [ion binding]; metal-binding site 1048260005932 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1048260005933 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1048260005934 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 1048260005935 catalytic residues [active] 1048260005936 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1048260005937 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1048260005938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048260005939 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1048260005940 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260005941 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260005942 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260005943 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1048260005944 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 1048260005945 active site 1048260005946 phosphorylation site [posttranslational modification] 1048260005947 intermolecular recognition site; other site 1048260005948 dimerization interface [polypeptide binding]; other site 1048260005949 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 1048260005950 Walker A motif; other site 1048260005951 ATP binding site [chemical binding]; other site 1048260005952 Walker B motif; other site 1048260005953 arginine finger; other site 1048260005954 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260005955 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1048260005956 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1048260005957 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1048260005958 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1048260005959 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260005960 Protein export membrane protein; Region: SecD_SecF; cl14618 1048260005961 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260005962 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1048260005963 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260005964 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 1048260005965 Uncharacterized conserved protein [Function unknown]; Region: COG1543 1048260005966 active site 1048260005967 substrate binding site [chemical binding]; other site 1048260005968 catalytic site [active] 1048260005969 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 1048260005970 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1048260005971 active site 1048260005972 intersubunit interface [polypeptide binding]; other site 1048260005973 zinc binding site [ion binding]; other site 1048260005974 Na+ binding site [ion binding]; other site 1048260005975 ADP-glucose phosphorylase; Region: PLN02643 1048260005976 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1048260005977 dimer interface [polypeptide binding]; other site 1048260005978 active site 1048260005979 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 1048260005980 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 1048260005981 active site 1048260005982 catalytic site [active] 1048260005983 homodimer interface [polypeptide binding]; other site 1048260005984 Lid 1; other site 1048260005985 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 1048260005986 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 1048260005987 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 1048260005988 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 1048260005989 putative active site [active] 1048260005990 catalytic site [active] 1048260005991 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 1048260005992 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1048260005993 ligand binding site; other site 1048260005994 oligomer interface; other site 1048260005995 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 1048260005996 dimer interface [polypeptide binding]; other site 1048260005997 N-terminal domain interface [polypeptide binding]; other site 1048260005998 sulfate 1 binding site; other site 1048260005999 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 1048260006000 iron-sulfur cluster [ion binding]; other site 1048260006001 [2Fe-2S] cluster binding site [ion binding]; other site 1048260006002 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1048260006003 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 1048260006004 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1048260006005 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 1048260006006 active site 1048260006007 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048260006008 HlyD family secretion protein; Region: HlyD_3; pfam13437 1048260006009 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1048260006010 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 1048260006011 IHF - DNA interface [nucleotide binding]; other site 1048260006012 IHF dimer interface [polypeptide binding]; other site 1048260006013 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1048260006014 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1048260006015 Clp amino terminal domain; Region: Clp_N; pfam02861 1048260006016 Clp amino terminal domain; Region: Clp_N; pfam02861 1048260006017 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 1048260006018 Walker A motif; other site 1048260006019 ATP binding site [chemical binding]; other site 1048260006020 Walker B motif; other site 1048260006021 arginine finger; other site 1048260006022 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 1048260006023 Walker A motif; other site 1048260006024 ATP binding site [chemical binding]; other site 1048260006025 Walker B motif; other site 1048260006026 arginine finger; other site 1048260006027 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1048260006028 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1048260006029 chaperone protein DnaJ; Provisional; Region: PRK14299 1048260006030 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 1048260006031 HSP70 interaction site [polypeptide binding]; other site 1048260006032 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1048260006033 substrate binding site [polypeptide binding]; other site 1048260006034 dimer interface [polypeptide binding]; other site 1048260006035 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 1048260006036 L-aspartate oxidase; Provisional; Region: PRK06175 1048260006037 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1048260006038 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1048260006039 HIGH motif; other site 1048260006040 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1048260006041 active site 1048260006042 KMSKS motif; other site 1048260006043 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 1048260006044 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1048260006045 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1048260006046 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 1048260006047 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 1048260006048 TPP-binding site [chemical binding]; other site 1048260006049 dimer interface [polypeptide binding]; other site 1048260006050 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 1048260006051 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 1048260006052 dimer interface [polypeptide binding]; other site 1048260006053 PYR/PP interface [polypeptide binding]; other site 1048260006054 TPP binding site [chemical binding]; other site 1048260006055 substrate binding site [chemical binding]; other site 1048260006056 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048260006057 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1048260006058 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1048260006059 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1048260006060 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 1048260006061 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 1048260006062 TPP-binding site [chemical binding]; other site 1048260006063 dimer interface [polypeptide binding]; other site 1048260006064 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 1048260006065 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 1048260006066 dimer interface [polypeptide binding]; other site 1048260006067 PYR/PP interface [polypeptide binding]; other site 1048260006068 TPP binding site [chemical binding]; other site 1048260006069 substrate binding site [chemical binding]; other site 1048260006070 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048260006071 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 1048260006072 HSP70 interaction site [polypeptide binding]; other site 1048260006073 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1048260006074 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 1048260006075 inhibitor-cofactor binding pocket; inhibition site 1048260006076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048260006077 catalytic residue [active] 1048260006078 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1048260006079 dimer interface [polypeptide binding]; other site 1048260006080 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1048260006081 active site 1048260006082 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1048260006083 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1048260006084 active site 1048260006085 nucleotide binding site [chemical binding]; other site 1048260006086 HIGH motif; other site 1048260006087 KMSKS motif; other site 1048260006088 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1048260006089 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1048260006090 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 1048260006091 ATP binding site [chemical binding]; other site 1048260006092 putative Mg++ binding site [ion binding]; other site 1048260006093 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 1048260006094 nucleotide binding region [chemical binding]; other site 1048260006095 ATP-binding site [chemical binding]; other site 1048260006096 TRCF domain; Region: TRCF; pfam03461 1048260006097 SurA N-terminal domain; Region: SurA_N_3; cl07813 1048260006098 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1048260006099 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1048260006100 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1048260006101 SurA N-terminal domain; Region: SurA_N; pfam09312 1048260006102 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1048260006103 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1048260006104 G1 box; other site 1048260006105 GTP/Mg2+ binding site [chemical binding]; other site 1048260006106 Switch I region; other site 1048260006107 G2 box; other site 1048260006108 G3 box; other site 1048260006109 Switch II region; other site 1048260006110 G4 box; other site 1048260006111 G5 box; other site 1048260006112 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 1048260006113 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 1048260006114 active site 1048260006115 Phosphotransferase enzyme family; Region: APH; pfam01636 1048260006116 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 1048260006117 substrate binding site [chemical binding]; other site 1048260006118 Predicted membrane protein [Function unknown]; Region: COG2855 1048260006119 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1048260006120 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 1048260006121 DNA binding site [nucleotide binding] 1048260006122 catalytic residue [active] 1048260006123 H2TH interface [polypeptide binding]; other site 1048260006124 putative catalytic residues [active] 1048260006125 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1048260006126 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1048260006127 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 1048260006128 active site 1048260006129 metal binding site [ion binding]; metal-binding site 1048260006130 interdomain interaction site; other site 1048260006131 Virulence-associated protein E; Region: VirE; pfam05272 1048260006132 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1048260006133 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1048260006134 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1048260006135 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1048260006136 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 1048260006137 Walker A motif; other site 1048260006138 ATP binding site [chemical binding]; other site 1048260006139 Walker B motif; other site 1048260006140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1048260006141 EamA-like transporter family; Region: EamA; pfam00892 1048260006142 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1048260006143 EamA-like transporter family; Region: EamA; pfam00892 1048260006144 PBP superfamily domain; Region: PBP_like_2; cl17296 1048260006145 arsenical pump membrane protein; Provisional; Region: PRK15445 1048260006146 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1048260006147 transmembrane helices; other site 1048260006148 FOG: CBS domain [General function prediction only]; Region: COG0517 1048260006149 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 1048260006150 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 1048260006151 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 1048260006152 P loop; other site 1048260006153 Nucleotide binding site [chemical binding]; other site 1048260006154 DTAP/Switch II; other site 1048260006155 Switch I; other site 1048260006156 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 1048260006157 DTAP/Switch II; other site 1048260006158 Switch I; other site 1048260006159 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1048260006160 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1048260006161 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1048260006162 active site 1048260006163 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 1048260006164 dimerization interface [polypeptide binding]; other site 1048260006165 putative DNA binding site [nucleotide binding]; other site 1048260006166 putative Zn2+ binding site [ion binding]; other site 1048260006167 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; cl00257 1048260006168 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 1048260006169 active site 1048260006170 DNA binding site [nucleotide binding] 1048260006171 Int/Topo IB signature motif; other site 1048260006172 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1048260006173 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048260006174 active site 1048260006175 HIGH motif; other site 1048260006176 nucleotide binding site [chemical binding]; other site 1048260006177 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1048260006178 active site 1048260006179 KMSKS motif; other site 1048260006180 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1048260006181 tRNA binding surface [nucleotide binding]; other site 1048260006182 anticodon binding site; other site 1048260006183 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1048260006184 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 1048260006185 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1048260006186 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 1048260006187 binding surface 1048260006188 TPR motif; other site 1048260006189 TPR repeat; Region: TPR_11; pfam13414 1048260006190 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1048260006191 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 1048260006192 RNA binding surface [nucleotide binding]; other site 1048260006193 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1048260006194 active site 1048260006195 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1048260006196 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1048260006197 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1048260006198 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1048260006199 substrate binding pocket [chemical binding]; other site 1048260006200 chain length determination region; other site 1048260006201 substrate-Mg2+ binding site; other site 1048260006202 catalytic residues [active] 1048260006203 aspartate-rich region 1; other site 1048260006204 active site lid residues [active] 1048260006205 aspartate-rich region 2; other site 1048260006206 Preprotein translocase subunit; Region: YajC; cl00806 1048260006207 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 1048260006208 Peptidase family M50; Region: Peptidase_M50; pfam02163 1048260006209 active site 1048260006210 putative substrate binding region [chemical binding]; other site 1048260006211 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 1048260006212 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1048260006213 active site 1048260006214 dimerization interface [polypeptide binding]; other site 1048260006215 phosphoenolpyruvate carboxylase, archaeal type; Region: PEPCase_arch; TIGR02751 1048260006216 Phosphoenolpyruvate carboxylase; Region: PEPcase_2; pfam14010 1048260006217 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1048260006218 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1048260006219 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1048260006220 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1048260006221 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 1048260006222 catalytic loop [active] 1048260006223 iron binding site [ion binding]; other site 1048260006224 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 1048260006225 ribonuclease III; Reviewed; Region: rnc; PRK00102 1048260006226 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 1048260006227 dimerization interface [polypeptide binding]; other site 1048260006228 active site 1048260006229 metal binding site [ion binding]; metal-binding site 1048260006230 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 1048260006231 dsRNA binding site [nucleotide binding]; other site 1048260006232 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1048260006233 active site 1048260006234 catalytic site [active] 1048260006235 substrate binding site [chemical binding]; other site 1048260006236 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1048260006237 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 1048260006238 Ligand Binding Site [chemical binding]; other site 1048260006239 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1048260006240 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1048260006241 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1048260006242 ParB-like nuclease domain; Region: ParBc; pfam02195 1048260006243 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 1048260006244 salt bridge; other site 1048260006245 non-specific DNA binding site [nucleotide binding]; other site 1048260006246 sequence-specific DNA binding site [nucleotide binding]; other site 1048260006247 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1048260006248 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 1048260006249 P-loop; other site 1048260006250 Magnesium ion binding site [ion binding]; other site 1048260006251 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 1048260006252 Magnesium ion binding site [ion binding]; other site 1048260006253 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 1048260006254 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1048260006255 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1048260006256 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1048260006257 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1048260006258 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1048260006259 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1048260006260 G1 box; other site 1048260006261 GTP/Mg2+ binding site [chemical binding]; other site 1048260006262 Switch I region; other site 1048260006263 G2 box; other site 1048260006264 Switch II region; other site 1048260006265 G3 box; other site 1048260006266 G4 box; other site 1048260006267 G5 box; other site 1048260006268 membrane protein insertase; Provisional; Region: PRK01318 1048260006269 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1048260006270 Haemolytic domain; Region: Haemolytic; pfam01809 1048260006271 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1048260006272 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1048260006273 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1048260006274 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1048260006275 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1048260006276 Pleckstrin homology-like domain; Region: PH-like; cl17171 1048260006277 Protein of unknown function DUF45; Region: DUF45; pfam01863 1048260006278 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1048260006279 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1048260006280 active site 1048260006281 putative homodimer interface [polypeptide binding]; other site 1048260006282 SAM binding site [chemical binding]; other site 1048260006283 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1048260006284 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 1048260006285 S-adenosylmethionine binding site [chemical binding]; other site 1048260006286 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1048260006287 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1048260006288 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1048260006289 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1048260006290 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1048260006291 active site 1048260006292 SAM binding site [chemical binding]; other site 1048260006293 homodimer interface [polypeptide binding]; other site 1048260006294 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1048260006295 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 1048260006296 homodimer interface [polypeptide binding]; other site 1048260006297 Walker A motif; other site 1048260006298 ATP binding site [chemical binding]; other site 1048260006299 hydroxycobalamin binding site [chemical binding]; other site 1048260006300 Walker B motif; other site 1048260006301 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 1048260006302 active site 1048260006303 catalytic residues [active] 1048260006304 metal binding site [ion binding]; metal-binding site 1048260006305 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 1048260006306 active site 1048260006307 dimer interface [polypeptide binding]; other site 1048260006308 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1048260006309 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 1048260006310 S-adenosylmethionine binding site [chemical binding]; other site 1048260006311 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1048260006312 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1048260006313 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1048260006314 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1048260006315 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1048260006316 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1048260006317 EamA-like transporter family; Region: EamA; pfam00892 1048260006318 EamA-like transporter family; Region: EamA; pfam00892 1048260006319 PBP superfamily domain; Region: PBP_like_2; cl17296 1048260006320 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1689 1048260006321 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 1048260006322 Ribulose bisphosphate carboxylase like proteins, Rubisco-Form IV; Region: RuBisCO_IV_RLP; cd08205 1048260006323 dimer interface [polypeptide binding]; other site 1048260006324 active site 1048260006325 catalytic residue [active] 1048260006326 metal binding site [ion binding]; metal-binding site 1048260006327 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1048260006328 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 1048260006329 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1048260006330 FeS/SAM binding site; other site 1048260006331 hopanoid C-3 methylase HpnR; Region: HpnR_B12_rSAM; TIGR04367 1048260006332 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 1048260006333 binding surface 1048260006334 TPR motif; other site 1048260006335 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 1048260006336 TPR motif; other site 1048260006337 TPR repeat; Region: TPR_11; pfam13414 1048260006338 binding surface 1048260006339 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1048260006340 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1048260006341 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 1048260006342 active site 1048260006343 metal binding site [ion binding]; metal-binding site 1048260006344 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 1048260006345 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1048260006346 Quinolinate synthetase A protein; Region: NadA; pfam02445 1048260006347 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1048260006348 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1048260006349 tartrate dehydrogenase; Region: TTC; TIGR02089 1048260006350 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1048260006351 2-isopropylmalate synthase; Validated; Region: PRK00915 1048260006352 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1048260006353 active site 1048260006354 catalytic residues [active] 1048260006355 metal binding site [ion binding]; metal-binding site 1048260006356 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1048260006357 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1048260006358 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1048260006359 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1048260006360 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1048260006361 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1048260006362 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1048260006363 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1048260006364 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1048260006365 putative valine binding site [chemical binding]; other site 1048260006366 dimer interface [polypeptide binding]; other site 1048260006367 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1048260006368 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1048260006369 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1048260006370 PYR/PP interface [polypeptide binding]; other site 1048260006371 dimer interface [polypeptide binding]; other site 1048260006372 TPP binding site [chemical binding]; other site 1048260006373 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1048260006374 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 1048260006375 TPP-binding site [chemical binding]; other site 1048260006376 dimer interface [polypeptide binding]; other site