-- dump date 20140620_025219 -- class Genbank::misc_feature -- table misc_feature_note -- id note 349102000001 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 349102000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 349102000003 DnaA N-terminal domain; Region: DnaA_N; pfam11638 349102000004 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 349102000005 Walker A motif; other site 349102000006 ATP binding site [chemical binding]; other site 349102000007 Walker B motif; other site 349102000008 arginine finger; other site 349102000009 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 349102000010 DnaA box-binding interface [nucleotide binding]; other site 349102000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 349102000012 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 349102000013 putative DNA binding surface [nucleotide binding]; other site 349102000014 dimer interface [polypeptide binding]; other site 349102000015 beta-clamp/clamp loader binding surface; other site 349102000016 beta-clamp/translesion DNA polymerase binding surface; other site 349102000017 recombination protein F; Reviewed; Region: recF; PRK00064 349102000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102000019 Walker A/P-loop; other site 349102000020 ATP binding site [chemical binding]; other site 349102000021 Q-loop/lid; other site 349102000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102000023 ABC transporter signature motif; other site 349102000024 Walker B; other site 349102000025 D-loop; other site 349102000026 H-loop/switch region; other site 349102000027 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 349102000028 active site 349102000029 metal binding site [ion binding]; metal-binding site 349102000030 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 349102000031 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 349102000032 Mg2+ binding site [ion binding]; other site 349102000033 G-X-G motif; other site 349102000034 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 349102000035 anchoring element; other site 349102000036 dimer interface [polypeptide binding]; other site 349102000037 ATP binding site [chemical binding]; other site 349102000038 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 349102000039 active site 349102000040 putative metal-binding site [ion binding]; other site 349102000041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349102000042 Predicted ATPase [General function prediction only]; Region: COG1485 349102000043 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 349102000044 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 349102000045 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 349102000046 motif II; other site 349102000047 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 349102000048 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102000049 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349102000050 catalytic residue [active] 349102000051 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 349102000052 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 349102000053 ligand binding site [chemical binding]; other site 349102000054 NAD binding site [chemical binding]; other site 349102000055 dimerization interface [polypeptide binding]; other site 349102000056 catalytic site [active] 349102000057 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 349102000058 putative L-serine binding site [chemical binding]; other site 349102000059 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 349102000060 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102000061 active site 349102000062 metal binding site [ion binding]; metal-binding site 349102000063 beta-ketothiolase; Provisional; Region: PRK09051 349102000064 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 349102000065 dimer interface [polypeptide binding]; other site 349102000066 active site 349102000067 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 349102000068 Transglycosylase; Region: Transgly; pfam00912 349102000069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349102000070 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 349102000071 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 349102000072 putative binding site; other site 349102000073 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 349102000074 MG2 domain; Region: A2M_N; pfam01835 349102000075 MG2 domain; Region: A2M_N; pfam01835 349102000076 Alpha-2-macroglobulin family; Region: A2M; pfam00207 349102000077 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 349102000078 surface patch; other site 349102000079 thioester region; other site 349102000080 specificity defining residues; other site 349102000081 PAS fold; Region: PAS_7; pfam12860 349102000082 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349102000083 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 349102000084 dimer interface [polypeptide binding]; other site 349102000085 phosphorylation site [posttranslational modification] 349102000086 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 349102000087 ATP binding site [chemical binding]; other site 349102000088 Mg2+ binding site [ion binding]; other site 349102000089 G-X-G motif; other site 349102000090 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349102000091 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 349102000092 active site 349102000093 phosphorylation site [posttranslational modification] 349102000094 intermolecular recognition site; other site 349102000095 dimerization interface [polypeptide binding]; other site 349102000096 Response regulator receiver domain; Region: Response_reg; pfam00072 349102000097 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 349102000098 active site 349102000099 phosphorylation site [posttranslational modification] 349102000100 intermolecular recognition site; other site 349102000101 dimerization interface [polypeptide binding]; other site 349102000102 hypothetical protein; Validated; Region: PRK02101 349102000103 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 349102000104 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 349102000105 ATP binding site [chemical binding]; other site 349102000106 putative Mg++ binding site [ion binding]; other site 349102000107 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 349102000108 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 349102000109 active site residue [active] 349102000110 nucleotide binding region [chemical binding]; other site 349102000111 ATP-binding site [chemical binding]; other site 349102000112 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 349102000113 HRDC domain; Region: HRDC; pfam00570 349102000114 HRDC domain; Region: HRDC; pfam00570 349102000115 YGGT family; Region: YGGT; pfam02325 349102000116 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 349102000117 active site 349102000118 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 349102000119 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 349102000120 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 349102000121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 349102000122 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 349102000123 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 349102000124 hypothetical protein; Provisional; Region: PRK09256 349102000125 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 349102000126 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 349102000127 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 349102000128 active site 349102000129 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 349102000130 Isochorismatase family; Region: Isochorismatase; pfam00857 349102000131 catalytic triad [active] 349102000132 metal binding site [ion binding]; metal-binding site 349102000133 conserved cis-peptide bond; other site 349102000134 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 349102000135 classical (c) SDRs; Region: SDR_c; cd05233 349102000136 NAD(P) binding site [chemical binding]; other site 349102000137 active site 349102000138 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 349102000139 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 349102000140 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 349102000141 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 349102000142 active site 349102000143 catalytic site [active] 349102000144 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 349102000145 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102000146 putative substrate translocation pore; other site 349102000147 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 349102000148 D-galactonate transporter; Region: 2A0114; TIGR00893 349102000149 putative substrate translocation pore; other site 349102000150 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 349102000151 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349102000152 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 349102000153 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 349102000154 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 349102000155 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 349102000156 active site clefts [active] 349102000157 zinc binding site [ion binding]; other site 349102000158 dimer interface [polypeptide binding]; other site 349102000159 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 349102000160 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 349102000161 interface (dimer of trimers) [polypeptide binding]; other site 349102000162 Substrate-binding/catalytic site; other site 349102000163 Zn-binding sites [ion binding]; other site 349102000164 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 349102000165 NlpC/P60 family; Region: NLPC_P60; pfam00877 349102000166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 349102000167 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 349102000168 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 349102000169 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 349102000170 L-asparaginase II; Region: Asparaginase_II; pfam06089 349102000171 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 349102000172 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 349102000173 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 349102000174 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 349102000175 trimer interface [polypeptide binding]; other site 349102000176 active site 349102000177 substrate binding site [chemical binding]; other site 349102000178 CoA binding site [chemical binding]; other site 349102000179 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 349102000180 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 349102000181 metal binding site [ion binding]; metal-binding site 349102000182 dimer interface [polypeptide binding]; other site 349102000183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349102000184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102000185 Coenzyme A binding pocket [chemical binding]; other site 349102000186 ribonuclease R; Region: RNase_R; TIGR02063 349102000187 RNB domain; Region: RNB; pfam00773 349102000188 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 349102000189 RNA binding site [nucleotide binding]; other site 349102000190 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349102000191 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 349102000192 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102000193 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102000194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349102000195 Winged helix-turn helix; Region: HTH_29; pfam13551 349102000196 Integrase core domain; Region: rve; pfam00665 349102000197 Integrase core domain; Region: rve_3; pfam13683 349102000198 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 349102000199 DNA Polymerase Y-family; Region: PolY_like; cd03468 349102000200 active site 349102000201 DNA binding site [nucleotide binding] 349102000202 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 349102000203 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 349102000204 putative metal binding site [ion binding]; other site 349102000205 Uncharacterized conserved protein [Function unknown]; Region: COG1432 349102000206 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 349102000207 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 349102000208 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 349102000209 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 349102000210 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349102000211 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349102000212 Thioredoxin; Region: Thioredoxin_4; pfam13462 349102000213 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 349102000214 Protein of unknown function (DUF721); Region: DUF721; pfam05258 349102000215 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 349102000216 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349102000217 minor groove reading motif; other site 349102000218 helix-hairpin-helix signature motif; other site 349102000219 substrate binding pocket [chemical binding]; other site 349102000220 active site 349102000221 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 349102000222 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 349102000223 DNA binding and oxoG recognition site [nucleotide binding] 349102000224 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 349102000225 Di-iron ligands [ion binding]; other site 349102000226 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 349102000227 DNA methylase; Region: N6_N4_Mtase; pfam01555 349102000228 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 349102000229 RNA/DNA hybrid binding site [nucleotide binding]; other site 349102000230 active site 349102000231 Haemolytic domain; Region: Haemolytic; pfam01809 349102000232 Ribonuclease P; Region: Ribonuclease_P; pfam00825 349102000233 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 349102000234 Uncharacterized conserved protein [Function unknown]; Region: COG0398 349102000235 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349102000236 mercuric reductase; Validated; Region: PRK06370 349102000237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102000238 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102000239 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349102000240 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102000241 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 349102000242 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 349102000243 ATP binding site [chemical binding]; other site 349102000244 Mg2+ binding site [ion binding]; other site 349102000245 G-X-G motif; other site 349102000246 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 349102000247 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 349102000248 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102000249 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349102000250 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 349102000251 E3 interaction surface; other site 349102000252 lipoyl attachment site [posttranslational modification]; other site 349102000253 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 349102000254 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 349102000255 E3 interaction surface; other site 349102000256 lipoyl attachment site [posttranslational modification]; other site 349102000257 e3 binding domain; Region: E3_binding; pfam02817 349102000258 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349102000259 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 349102000260 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 349102000261 TPP-binding site [chemical binding]; other site 349102000262 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 349102000263 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 349102000264 CoA binding domain; Region: CoA_binding; pfam02629 349102000265 CoA-ligase; Region: Ligase_CoA; pfam00549 349102000266 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 349102000267 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 349102000268 CoA-ligase; Region: Ligase_CoA; pfam00549 349102000269 malate dehydrogenase; Reviewed; Region: PRK06223 349102000270 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 349102000271 NAD(P) binding site [chemical binding]; other site 349102000272 dimer interface [polypeptide binding]; other site 349102000273 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349102000274 substrate binding site [chemical binding]; other site 349102000275 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349102000276 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 349102000277 NnrU protein; Region: NnrU; pfam07298 349102000278 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 349102000279 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 349102000280 putative active site [active] 349102000281 putative catalytic site [active] 349102000282 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 349102000283 putative active site [active] 349102000284 putative catalytic site [active] 349102000285 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 349102000286 Iron-sulfur protein interface; other site 349102000287 proximal quinone binding site [chemical binding]; other site 349102000288 SdhD (CybS) interface [polypeptide binding]; other site 349102000289 proximal heme binding site [chemical binding]; other site 349102000290 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 349102000291 putative SdhC subunit interface [polypeptide binding]; other site 349102000292 putative proximal heme binding site [chemical binding]; other site 349102000293 putative Iron-sulfur protein interface [polypeptide binding]; other site 349102000294 putative proximal quinone binding site; other site 349102000295 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 349102000296 L-aspartate oxidase; Provisional; Region: PRK06175 349102000297 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349102000298 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 349102000299 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 349102000300 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102000301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102000302 DNA-binding site [nucleotide binding]; DNA binding site 349102000303 FCD domain; Region: FCD; pfam07729 349102000304 Protein of unknown function DUF45; Region: DUF45; pfam01863 349102000305 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 349102000306 TIGR02300 family protein; Region: FYDLN_acid 349102000307 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 349102000308 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 349102000309 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 349102000310 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349102000311 oligomer interface [polypeptide binding]; other site 349102000312 tandem repeat interface [polypeptide binding]; other site 349102000313 active site residues [active] 349102000314 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 349102000315 active site 349102000316 Int/Topo IB signature motif; other site 349102000317 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349102000318 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102000319 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102000320 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 349102000321 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 349102000322 Walker A/P-loop; other site 349102000323 ATP binding site [chemical binding]; other site 349102000324 Q-loop/lid; other site 349102000325 ABC transporter signature motif; other site 349102000326 Walker B; other site 349102000327 D-loop; other site 349102000328 H-loop/switch region; other site 349102000329 VacJ like lipoprotein; Region: VacJ; cl01073 349102000330 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 349102000331 Transglycosylase; Region: Transgly; pfam00912 349102000332 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 349102000333 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349102000334 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 349102000335 Nitrogen regulatory protein P-II; Region: P-II; smart00938 349102000336 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 349102000337 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 349102000338 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 349102000339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102000340 homodimer interface [polypeptide binding]; other site 349102000341 catalytic residue [active] 349102000342 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 349102000343 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 349102000344 active site residue [active] 349102000345 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 349102000346 active site residue [active] 349102000347 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 349102000348 SmpB-tmRNA interface; other site 349102000349 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 349102000350 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 349102000351 dimer interface [polypeptide binding]; other site 349102000352 active site 349102000353 catalytic residue [active] 349102000354 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 349102000355 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349102000356 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 349102000357 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102000358 catalytic residue [active] 349102000359 AAA domain; Region: AAA_25; pfam13481 349102000360 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 349102000361 Walker A motif; other site 349102000362 ATP binding site [chemical binding]; other site 349102000363 Walker B motif; other site 349102000364 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 349102000365 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 349102000366 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 349102000367 non-specific DNA binding site [nucleotide binding]; other site 349102000368 salt bridge; other site 349102000369 sequence-specific DNA binding site [nucleotide binding]; other site 349102000370 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 349102000371 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 349102000372 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 349102000373 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 349102000374 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 349102000375 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 349102000376 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349102000377 active site 349102000378 catalytic residues [active] 349102000379 DNA binding site [nucleotide binding] 349102000380 Int/Topo IB signature motif; other site 349102000381 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 349102000382 Uncharacterized conserved protein [Function unknown]; Region: COG4121 349102000383 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349102000384 EamA-like transporter family; Region: EamA; pfam00892 349102000385 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 349102000386 AAA domain; Region: AAA_23; pfam13476 349102000387 Walker A/P-loop; other site 349102000388 ATP binding site [chemical binding]; other site 349102000389 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 349102000390 Walker B; other site 349102000391 D-loop; other site 349102000392 H-loop/switch region; other site 349102000393 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 349102000394 active site 349102000395 phosphorylation site [posttranslational modification] 349102000396 intermolecular recognition site; other site 349102000397 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 349102000398 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 349102000399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102000400 homodimer interface [polypeptide binding]; other site 349102000401 catalytic residue [active] 349102000402 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 349102000403 active site 349102000404 catalytic residues [active] 349102000405 metal binding site [ion binding]; metal-binding site 349102000406 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 349102000407 active site 349102000408 catalytic residues [active] 349102000409 metal binding site [ion binding]; metal-binding site 349102000410 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 349102000411 active site 349102000412 catalytic residues [active] 349102000413 metal binding site [ion binding]; metal-binding site 349102000414 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 349102000415 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 349102000416 putative active site [active] 349102000417 substrate binding site [chemical binding]; other site 349102000418 putative cosubstrate binding site; other site 349102000419 catalytic site [active] 349102000420 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 349102000421 substrate binding site [chemical binding]; other site 349102000422 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 349102000423 RNA/DNA hybrid binding site [nucleotide binding]; other site 349102000424 active site 349102000425 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 349102000426 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 349102000427 SOUL heme-binding protein; Region: SOUL; pfam04832 349102000428 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 349102000429 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 349102000430 substrate binding site [chemical binding]; other site 349102000431 ligand binding site [chemical binding]; other site 349102000432 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 349102000433 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 349102000434 substrate binding site [chemical binding]; other site 349102000435 tartrate dehydrogenase; Region: TTC; TIGR02089 349102000436 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 349102000437 EamA-like transporter family; Region: EamA; pfam00892 349102000438 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349102000439 EamA-like transporter family; Region: EamA; pfam00892 349102000440 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102000441 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102000442 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102000443 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102000444 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102000445 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102000446 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102000447 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102000448 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102000449 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102000450 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102000451 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102000452 Protein of unknown function (DUF805); Region: DUF805; pfam05656 349102000453 signal recognition particle protein; Provisional; Region: PRK10867 349102000454 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 349102000455 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 349102000456 P loop; other site 349102000457 GTP binding site [chemical binding]; other site 349102000458 Signal peptide binding domain; Region: SRP_SPB; pfam02978 349102000459 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349102000460 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349102000461 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349102000462 chorismate mutase; Provisional; Region: PRK09239 349102000463 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 349102000464 RimM N-terminal domain; Region: RimM; pfam01782 349102000465 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 349102000466 PRC-barrel domain; Region: PRC; pfam05239 349102000467 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 349102000468 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 349102000469 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 349102000470 ATPase MipZ; Region: MipZ; pfam09140 349102000471 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 349102000472 P-loop; other site 349102000473 Magnesium ion binding site [ion binding]; other site 349102000474 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 349102000475 Magnesium ion binding site [ion binding]; other site 349102000476 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 349102000477 dimerization interface [polypeptide binding]; other site 349102000478 putative DNA binding site [nucleotide binding]; other site 349102000479 putative Zn2+ binding site [ion binding]; other site 349102000480 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 349102000481 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 349102000482 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 349102000483 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 349102000484 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 349102000485 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 349102000486 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 349102000487 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349102000488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102000489 DNA-binding site [nucleotide binding]; DNA binding site 349102000490 FCD domain; Region: FCD; pfam07729 349102000491 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102000492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102000493 ligand binding site [chemical binding]; other site 349102000494 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349102000495 Helix-turn-helix domain; Region: HTH_18; pfam12833 349102000496 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 349102000497 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 349102000498 DNA binding site [nucleotide binding] 349102000499 active site 349102000500 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 349102000501 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349102000502 minor groove reading motif; other site 349102000503 helix-hairpin-helix signature motif; other site 349102000504 substrate binding pocket [chemical binding]; other site 349102000505 active site 349102000506 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 349102000507 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 349102000508 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349102000509 substrate binding site [chemical binding]; other site 349102000510 ATP binding site [chemical binding]; other site 349102000511 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 349102000512 nucleotide binding site/active site [active] 349102000513 HIT family signature motif; other site 349102000514 catalytic residue [active] 349102000515 DNA polymerase I; Provisional; Region: PRK05755 349102000516 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 349102000517 active site 349102000518 metal binding site 1 [ion binding]; metal-binding site 349102000519 putative 5' ssDNA interaction site; other site 349102000520 metal binding site 3; metal-binding site 349102000521 metal binding site 2 [ion binding]; metal-binding site 349102000522 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 349102000523 putative DNA binding site [nucleotide binding]; other site 349102000524 putative metal binding site [ion binding]; other site 349102000525 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 349102000526 active site 349102000527 catalytic site [active] 349102000528 substrate binding site [chemical binding]; other site 349102000529 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 349102000530 active site 349102000531 DNA binding site [nucleotide binding] 349102000532 catalytic site [active] 349102000533 Zinc-finger domain; Region: zf-CHCC; pfam10276 349102000534 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 349102000535 MoxR-like ATPases [General function prediction only]; Region: COG0714 349102000536 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 349102000537 Walker A motif; other site 349102000538 ATP binding site [chemical binding]; other site 349102000539 Walker B motif; other site 349102000540 arginine finger; other site 349102000541 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 349102000542 Protein of unknown function DUF58; Region: DUF58; pfam01882 349102000543 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 349102000544 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 349102000545 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 349102000546 Protein of unknown function, DUF599; Region: DUF599; pfam04654 349102000547 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 349102000548 FAD binding domain; Region: FAD_binding_4; pfam01565 349102000549 FAD binding domain; Region: FAD_binding_4; pfam01565 349102000550 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 349102000551 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 349102000552 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 349102000553 Cysteine-rich domain; Region: CCG; pfam02754 349102000554 Cysteine-rich domain; Region: CCG; pfam02754 349102000555 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 349102000556 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 349102000557 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 349102000558 putative dimer interface [polypeptide binding]; other site 349102000559 succinic semialdehyde dehydrogenase; Region: PLN02278 349102000560 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 349102000561 tetramerization interface [polypeptide binding]; other site 349102000562 NAD(P) binding site [chemical binding]; other site 349102000563 catalytic residues [active] 349102000564 glutamate--cysteine ligase; Region: PLN02611 349102000565 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 349102000566 RNA methyltransferase, RsmE family; Region: TIGR00046 349102000567 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 349102000568 UbiA prenyltransferase family; Region: UbiA; pfam01040 349102000569 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102000570 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102000571 ligand binding site [chemical binding]; other site 349102000572 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349102000573 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 349102000574 dihydroorotase; Validated; Region: PRK09059 349102000575 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 349102000576 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 349102000577 active site 349102000578 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 349102000579 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349102000580 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 349102000581 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 349102000582 Fe-S cluster binding site [ion binding]; other site 349102000583 active site 349102000584 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 349102000585 hypothetical protein; Validated; Region: PRK00228 349102000586 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 349102000587 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 349102000588 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 349102000589 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 349102000590 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102000591 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 349102000592 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 349102000593 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102000594 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 349102000595 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349102000596 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349102000597 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 349102000598 putative switch regulator; other site 349102000599 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102000600 non-specific DNA interactions [nucleotide binding]; other site 349102000601 DNA binding site [nucleotide binding] 349102000602 sequence specific DNA binding site [nucleotide binding]; other site 349102000603 putative cAMP binding site [chemical binding]; other site 349102000604 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349102000605 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349102000606 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 349102000607 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349102000608 ligand binding site [chemical binding]; other site 349102000609 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102000610 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349102000611 TM-ABC transporter signature motif; other site 349102000612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349102000613 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349102000614 Walker A/P-loop; other site 349102000615 ATP binding site [chemical binding]; other site 349102000616 Q-loop/lid; other site 349102000617 ABC transporter signature motif; other site 349102000618 Walker B; other site 349102000619 D-loop; other site 349102000620 H-loop/switch region; other site 349102000621 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 349102000622 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 349102000623 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349102000624 EamA-like transporter family; Region: EamA; pfam00892 349102000625 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 349102000626 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 349102000627 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 349102000628 active site 349102000629 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 349102000630 DctM-like transporters; Region: DctM; pfam06808 349102000631 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 349102000632 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 349102000633 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102000634 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 349102000635 PAS domain S-box; Region: sensory_box; TIGR00229 349102000636 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 349102000637 putative active site [active] 349102000638 heme pocket [chemical binding]; other site 349102000639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102000640 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 349102000641 ATP binding site [chemical binding]; other site 349102000642 Mg2+ binding site [ion binding]; other site 349102000643 G-X-G motif; other site 349102000644 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 349102000645 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 349102000646 active site 349102000647 phosphorylation site [posttranslational modification] 349102000648 intermolecular recognition site; other site 349102000649 dimerization interface [polypeptide binding]; other site 349102000650 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 349102000651 DNA binding residues [nucleotide binding] 349102000652 dimerization interface [polypeptide binding]; other site 349102000653 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349102000654 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349102000655 ABC-ATPase subunit interface; other site 349102000656 dimer interface [polypeptide binding]; other site 349102000657 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349102000658 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349102000659 ABC-ATPase subunit interface; other site 349102000660 dimer interface [polypeptide binding]; other site 349102000661 putative PBP binding regions; other site 349102000662 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 349102000663 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 349102000664 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 349102000665 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 349102000666 metal binding site [ion binding]; metal-binding site 349102000667 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 349102000668 homotrimer interaction site [polypeptide binding]; other site 349102000669 putative active site [active] 349102000670 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 349102000671 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 349102000672 active site 349102000673 catalytic site [active] 349102000674 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 349102000675 Protein of unknown function, DUF482; Region: DUF482; pfam04339 349102000676 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349102000677 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 349102000678 putative C-terminal domain interface [polypeptide binding]; other site 349102000679 putative GSH binding site (G-site) [chemical binding]; other site 349102000680 putative dimer interface [polypeptide binding]; other site 349102000681 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 349102000682 dimer interface [polypeptide binding]; other site 349102000683 N-terminal domain interface [polypeptide binding]; other site 349102000684 putative substrate binding pocket (H-site) [chemical binding]; other site 349102000685 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 349102000686 aromatic arch; other site 349102000687 DCoH dimer interaction site [polypeptide binding]; other site 349102000688 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349102000689 DCoH tetramer interaction site [polypeptide binding]; other site 349102000690 substrate binding site [chemical binding]; other site 349102000691 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 349102000692 ATP-sulfurylase; Region: ATPS; cd00517 349102000693 active site 349102000694 HXXH motif; other site 349102000695 flexible loop; other site 349102000696 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 349102000697 ligand-binding site [chemical binding]; other site 349102000698 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 349102000699 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102000700 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102000701 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102000702 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 349102000703 putative DNA binding site [nucleotide binding]; other site 349102000704 putative Zn2+ binding site [ion binding]; other site 349102000705 AsnC family; Region: AsnC_trans_reg; pfam01037 349102000706 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 349102000707 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 349102000708 Uncharacterized conserved protein [Function unknown]; Region: COG1565 349102000709 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 349102000710 Membrane fusogenic activity; Region: BMFP; pfam04380 349102000711 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 349102000712 anti sigma factor interaction site; other site 349102000713 regulatory phosphorylation site [posttranslational modification]; other site 349102000714 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349102000715 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 349102000716 active site 349102000717 phosphorylation site [posttranslational modification] 349102000718 intermolecular recognition site; other site 349102000719 dimerization interface [polypeptide binding]; other site 349102000720 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349102000721 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 349102000722 putative binding surface; other site 349102000723 active site 349102000724 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349102000725 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 349102000726 ATP binding site [chemical binding]; other site 349102000727 Mg2+ binding site [ion binding]; other site 349102000728 G-X-G motif; other site 349102000729 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 349102000730 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 349102000731 putative CheA interaction surface; other site 349102000732 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 349102000733 putative CheA interaction surface; other site 349102000734 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 349102000735 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349102000736 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 349102000737 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 349102000738 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 349102000739 active site 349102000740 phosphorylation site [posttranslational modification] 349102000741 intermolecular recognition site; other site 349102000742 dimerization interface [polypeptide binding]; other site 349102000743 CheB methylesterase; Region: CheB_methylest; pfam01339 349102000744 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 349102000745 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 349102000746 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 349102000747 putative dimer interface [polypeptide binding]; other site 349102000748 N-terminal domain interface [polypeptide binding]; other site 349102000749 putative substrate binding pocket (H-site) [chemical binding]; other site 349102000750 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349102000751 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 349102000752 active site 349102000753 phosphorylation site [posttranslational modification] 349102000754 intermolecular recognition site; other site 349102000755 dimerization interface [polypeptide binding]; other site 349102000756 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 349102000757 Walker A motif; other site 349102000758 ATP binding site [chemical binding]; other site 349102000759 Walker B motif; other site 349102000760 arginine finger; other site 349102000761 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102000762 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 349102000763 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 349102000764 acyl-activating enzyme (AAE) consensus motif; other site 349102000765 putative AMP binding site [chemical binding]; other site 349102000766 putative active site [active] 349102000767 putative CoA binding site [chemical binding]; other site 349102000768 malic enzyme; Reviewed; Region: PRK12862 349102000769 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349102000770 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349102000771 putative NAD(P) binding site [chemical binding]; other site 349102000772 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 349102000773 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 349102000774 active site 349102000775 catalytic motif [active] 349102000776 Zn binding site [ion binding]; other site 349102000777 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 349102000778 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349102000779 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349102000780 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 349102000781 phosphopentomutase; Provisional; Region: PRK05362 349102000782 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 349102000783 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 349102000784 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 349102000785 active site 349102000786 purine riboside binding site [chemical binding]; other site 349102000787 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102000788 active site 349102000789 Sporulation related domain; Region: SPOR; pfam05036 349102000790 acyl-CoA synthetase; Validated; Region: PRK08162 349102000791 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 349102000792 acyl-activating enzyme (AAE) consensus motif; other site 349102000793 putative active site [active] 349102000794 AMP binding site [chemical binding]; other site 349102000795 putative CoA binding site [chemical binding]; other site 349102000796 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 349102000797 S-adenosylmethionine binding site [chemical binding]; other site 349102000798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102000799 DNA-binding site [nucleotide binding]; DNA binding site 349102000800 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102000801 DNA-binding site [nucleotide binding]; DNA binding site 349102000802 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102000803 FCD domain; Region: FCD; pfam07729 349102000804 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 349102000805 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349102000806 putative NAD(P) binding site [chemical binding]; other site 349102000807 catalytic Zn binding site [ion binding]; other site 349102000808 structural Zn binding site [ion binding]; other site 349102000809 galactarate dehydratase; Region: galactar-dH20; TIGR03248 349102000810 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 349102000811 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 349102000812 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 349102000813 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 349102000814 ATP binding site [chemical binding]; other site 349102000815 Mg2+ binding site [ion binding]; other site 349102000816 G-X-G motif; other site 349102000817 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349102000818 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 349102000819 active site 349102000820 phosphorylation site [posttranslational modification] 349102000821 intermolecular recognition site; other site 349102000822 dimerization interface [polypeptide binding]; other site 349102000823 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 349102000824 Walker A motif; other site 349102000825 ATP binding site [chemical binding]; other site 349102000826 Walker B motif; other site 349102000827 arginine finger; other site 349102000828 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102000829 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 349102000830 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 349102000831 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 349102000832 DctM-like transporters; Region: DctM; pfam06808 349102000833 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 349102000834 guanine deaminase; Provisional; Region: PRK09228 349102000835 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 349102000836 active site 349102000837 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 349102000838 MgtE intracellular N domain; Region: MgtE_N; smart00924 349102000839 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 349102000840 Divalent cation transporter; Region: MgtE; cl00786 349102000841 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 349102000842 RNA helicase; Region: RNA_helicase; pfam00910 349102000843 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 349102000844 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 349102000845 TPR repeat; Region: TPR_11; pfam13414 349102000846 binding surface 349102000847 TPR motif; other site 349102000848 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 349102000849 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 349102000850 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 349102000851 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 349102000852 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 349102000853 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 349102000854 ATP binding site [chemical binding]; other site 349102000855 Walker A motif; other site 349102000856 hexamer interface [polypeptide binding]; other site 349102000857 Walker B motif; other site 349102000858 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349102000859 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 349102000860 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 349102000861 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102000862 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102000863 ligand binding site [chemical binding]; other site 349102000864 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 349102000865 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 349102000866 BON domain; Region: BON; pfam04972 349102000867 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 349102000868 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349102000869 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 349102000870 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102000871 catalytic residue [active] 349102000872 Flp/Fap pilin component; Region: Flp_Fap; cl01585 349102000873 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 349102000874 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 349102000875 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102000876 Transposase domain (DUF772); Region: DUF772; pfam05598 349102000877 transposase; Validated; Region: PRK08181 349102000878 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 349102000879 Walker A motif; other site 349102000880 ATP binding site [chemical binding]; other site 349102000881 Walker B motif; other site 349102000882 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102000883 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 349102000884 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 349102000885 FMN binding site [chemical binding]; other site 349102000886 active site 349102000887 catalytic residues [active] 349102000888 substrate binding site [chemical binding]; other site 349102000889 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349102000890 replicative DNA helicase; Provisional; Region: PRK09165 349102000891 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 349102000892 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 349102000893 Walker A motif; other site 349102000894 ATP binding site [chemical binding]; other site 349102000895 Walker B motif; other site 349102000896 DNA binding loops [nucleotide binding] 349102000897 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102000898 active site 349102000899 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 349102000900 active site 349102000901 substrate binding pocket [chemical binding]; other site 349102000902 dimer interface [polypeptide binding]; other site 349102000903 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349102000904 HD domain; Region: HD_4; pfam13328 349102000905 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 349102000906 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 349102000907 Walker A motif; other site 349102000908 ATP binding site [chemical binding]; other site 349102000909 Walker B motif; other site 349102000910 arginine finger; other site 349102000911 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 349102000912 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 349102000913 metal ion-dependent adhesion site (MIDAS); other site 349102000914 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102000915 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102000916 ligand binding site [chemical binding]; other site 349102000917 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 349102000918 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 349102000919 XdhC Rossmann domain; Region: XdhC_C; pfam13478 349102000920 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 349102000921 putative MPT binding site; other site 349102000922 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 349102000923 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 349102000924 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 349102000925 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 349102000926 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 349102000927 FAD binding pocket [chemical binding]; other site 349102000928 FAD binding motif [chemical binding]; other site 349102000929 phosphate binding motif [ion binding]; other site 349102000930 beta-alpha-beta structure motif; other site 349102000931 NAD binding pocket [chemical binding]; other site 349102000932 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 349102000933 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 349102000934 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 349102000935 Active Sites [active] 349102000936 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 349102000937 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349102000938 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349102000939 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 349102000940 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 349102000941 active site 349102000942 SAM binding site [chemical binding]; other site 349102000943 homodimer interface [polypeptide binding]; other site 349102000944 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102000945 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 349102000946 putative DNA binding site [nucleotide binding]; other site 349102000947 putative Zn2+ binding site [ion binding]; other site 349102000948 AsnC family; Region: AsnC_trans_reg; pfam01037 349102000949 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 349102000950 Cytochrome P450; Region: p450; cl12078 349102000951 triosephosphate isomerase; Provisional; Region: PRK14565 349102000952 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 349102000953 substrate binding site [chemical binding]; other site 349102000954 dimer interface [polypeptide binding]; other site 349102000955 catalytic triad [active] 349102000956 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 349102000957 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 349102000958 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 349102000959 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102000960 active site 349102000961 metal binding site [ion binding]; metal-binding site 349102000962 DNA binding site [nucleotide binding] 349102000963 P-loop containing region of AAA domain; Region: AAA_29; cl17516 349102000964 AAA domain; Region: AAA_23; pfam13476 349102000965 GTP-binding protein YchF; Reviewed; Region: PRK09601 349102000966 YchF GTPase; Region: YchF; cd01900 349102000967 G1 box; other site 349102000968 GTP/Mg2+ binding site [chemical binding]; other site 349102000969 Switch I region; other site 349102000970 G2 box; other site 349102000971 Switch II region; other site 349102000972 G3 box; other site 349102000973 G4 box; other site 349102000974 G5 box; other site 349102000975 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 349102000976 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 349102000977 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 349102000978 substrate binding site [chemical binding]; other site 349102000979 active site 349102000980 catalytic residues [active] 349102000981 heterodimer interface [polypeptide binding]; other site 349102000982 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 349102000983 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 349102000984 phosphate binding site [ion binding]; other site 349102000985 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 349102000986 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 349102000987 5S rRNA interface [nucleotide binding]; other site 349102000988 CTC domain interface [polypeptide binding]; other site 349102000989 L16 interface [polypeptide binding]; other site 349102000990 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 349102000991 putative active site [active] 349102000992 catalytic residue [active] 349102000993 ATP-NAD kinase; Region: NAD_kinase; pfam01513 349102000994 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 349102000995 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 349102000996 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 349102000997 dimer interface [polypeptide binding]; other site 349102000998 active site 349102000999 glycine-pyridoxal phosphate binding site [chemical binding]; other site 349102001000 folate binding site [chemical binding]; other site 349102001001 acyl-CoA esterase; Provisional; Region: PRK10673 349102001002 PGAP1-like protein; Region: PGAP1; pfam07819 349102001003 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 349102001004 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 349102001005 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 349102001006 ATP binding site [chemical binding]; other site 349102001007 Mg++ binding site [ion binding]; other site 349102001008 motif III; other site 349102001009 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 349102001010 nucleotide binding region [chemical binding]; other site 349102001011 ATP-binding site [chemical binding]; other site 349102001012 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349102001013 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 349102001014 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349102001015 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349102001016 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 349102001017 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349102001018 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349102001019 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 349102001020 IMP binding site; other site 349102001021 dimer interface [polypeptide binding]; other site 349102001022 partial ornithine binding site; other site 349102001023 aminodeoxychorismate synthase; Provisional; Region: PRK07508 349102001024 chorismate binding enzyme; Region: Chorismate_bind; cl10555 349102001025 hypothetical protein; Provisional; Region: PRK07546 349102001026 substrate-cofactor binding pocket; other site 349102001027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102001028 catalytic residue [active] 349102001029 CAAX protease self-immunity; Region: Abi; pfam02517 349102001030 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 349102001031 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 349102001032 dimer interface [polypeptide binding]; other site 349102001033 anticodon binding site; other site 349102001034 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 349102001035 motif 1; other site 349102001036 dimer interface [polypeptide binding]; other site 349102001037 active site 349102001038 motif 2; other site 349102001039 GAD domain; Region: GAD; pfam02938 349102001040 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 349102001041 active site 349102001042 motif 3; other site 349102001043 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349102001044 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349102001045 Response regulator receiver domain; Region: Response_reg; pfam00072 349102001046 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 349102001047 active site 349102001048 phosphorylation site [posttranslational modification] 349102001049 intermolecular recognition site; other site 349102001050 dimerization interface [polypeptide binding]; other site 349102001051 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349102001052 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 349102001053 dimer interface [polypeptide binding]; other site 349102001054 substrate binding site [chemical binding]; other site 349102001055 metal binding site [ion binding]; metal-binding site 349102001056 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 349102001057 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 349102001058 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 349102001059 putative FMN binding site [chemical binding]; other site 349102001060 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349102001061 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 349102001062 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349102001063 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 349102001064 dimer interface [polypeptide binding]; other site 349102001065 conserved gate region; other site 349102001066 putative PBP binding loops; other site 349102001067 ABC-ATPase subunit interface; other site 349102001068 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349102001069 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 349102001070 dimer interface [polypeptide binding]; other site 349102001071 conserved gate region; other site 349102001072 ABC-ATPase subunit interface; other site 349102001073 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349102001074 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102001075 Walker A/P-loop; other site 349102001076 ATP binding site [chemical binding]; other site 349102001077 Q-loop/lid; other site 349102001078 ABC transporter signature motif; other site 349102001079 Walker B; other site 349102001080 D-loop; other site 349102001081 H-loop/switch region; other site 349102001082 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102001083 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349102001084 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102001085 Walker A/P-loop; other site 349102001086 ATP binding site [chemical binding]; other site 349102001087 Q-loop/lid; other site 349102001088 ABC transporter signature motif; other site 349102001089 Walker B; other site 349102001090 D-loop; other site 349102001091 H-loop/switch region; other site 349102001092 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 349102001093 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 349102001094 active site 349102001095 dimer interface [polypeptide binding]; other site 349102001096 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349102001097 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 349102001098 active site 349102001099 Zn binding site [ion binding]; other site 349102001100 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 349102001101 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349102001102 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 349102001103 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 349102001104 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102001105 active site 349102001106 HIGH motif; other site 349102001107 nucleotide binding site [chemical binding]; other site 349102001108 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349102001109 active site 349102001110 KMSKS motif; other site 349102001111 cobyric acid synthase; Provisional; Region: PRK00784 349102001112 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 349102001113 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 349102001114 catalytic triad [active] 349102001115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102001116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102001117 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 349102001118 dimerization interface [polypeptide binding]; other site 349102001119 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 349102001120 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 349102001121 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 349102001122 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 349102001123 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 349102001124 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 349102001125 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 349102001126 FeS/SAM binding site; other site 349102001127 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 349102001128 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 349102001129 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 349102001130 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102001131 catalytic residue [active] 349102001132 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 349102001133 Protein of unknown function (DUF1636); Region: DUF1636; cl17843 349102001134 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349102001135 putative catalytic site [active] 349102001136 putative metal binding site [ion binding]; other site 349102001137 putative phosphate binding site [ion binding]; other site 349102001138 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 349102001139 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 349102001140 putative metal binding site [ion binding]; other site 349102001141 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 349102001142 HSP70 interaction site [polypeptide binding]; other site 349102001143 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 349102001144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349102001145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349102001146 exopolyphosphatase; Region: exo_poly_only; TIGR03706 349102001147 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 349102001148 polyphosphate kinase; Provisional; Region: PRK05443 349102001149 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 349102001150 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 349102001151 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 349102001152 putative domain interface [polypeptide binding]; other site 349102001153 putative active site [active] 349102001154 catalytic site [active] 349102001155 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 349102001156 putative domain interface [polypeptide binding]; other site 349102001157 putative active site [active] 349102001158 catalytic site [active] 349102001159 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 349102001160 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 349102001161 Walker A motif; other site 349102001162 ATP binding site [chemical binding]; other site 349102001163 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349102001164 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349102001165 prolyl-tRNA synthetase; Provisional; Region: PRK12325 349102001166 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 349102001167 dimer interface [polypeptide binding]; other site 349102001168 motif 1; other site 349102001169 active site 349102001170 motif 2; other site 349102001171 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 349102001172 active site 349102001173 motif 3; other site 349102001174 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 349102001175 anticodon binding site; other site 349102001176 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 349102001177 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349102001178 FtsX-like permease family; Region: FtsX; pfam02687 349102001179 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349102001180 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349102001181 Walker A/P-loop; other site 349102001182 ATP binding site [chemical binding]; other site 349102001183 Q-loop/lid; other site 349102001184 ABC transporter signature motif; other site 349102001185 Walker B; other site 349102001186 D-loop; other site 349102001187 H-loop/switch region; other site 349102001188 Cytochrome c; Region: Cytochrom_C; pfam00034 349102001189 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 349102001190 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 349102001191 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 349102001192 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 349102001193 RNA binding site [nucleotide binding]; other site 349102001194 mannonate dehydratase; Provisional; Region: PRK03906 349102001195 mannonate dehydratase; Region: uxuA; TIGR00695 349102001196 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 349102001197 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 349102001198 ATP binding site [chemical binding]; other site 349102001199 Mg2+ binding site [ion binding]; other site 349102001200 G-X-G motif; other site 349102001201 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 349102001202 anchoring element; other site 349102001203 dimer interface [polypeptide binding]; other site 349102001204 ATP binding site [chemical binding]; other site 349102001205 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 349102001206 active site 349102001207 metal binding site [ion binding]; metal-binding site 349102001208 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349102001209 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102001210 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 349102001211 DNA binding residues [nucleotide binding] 349102001212 dimerization interface [polypeptide binding]; other site 349102001213 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 349102001214 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 349102001215 putative efflux protein, MATE family; Region: matE; TIGR00797 349102001216 cation binding site [ion binding]; other site 349102001217 aspartate aminotransferase; Provisional; Region: PRK05764 349102001218 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 349102001219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102001220 homodimer interface [polypeptide binding]; other site 349102001221 catalytic residue [active] 349102001222 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 349102001223 non-specific DNA binding site [nucleotide binding]; other site 349102001224 salt bridge; other site 349102001225 sequence-specific DNA binding site [nucleotide binding]; other site 349102001226 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 349102001227 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 349102001228 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 349102001229 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349102001230 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 349102001231 Lumazine binding domain; Region: Lum_binding; pfam00677 349102001232 Lumazine binding domain; Region: Lum_binding; pfam00677 349102001233 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 349102001234 active site 349102001235 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 349102001236 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 349102001237 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 349102001238 dimerization interface [polypeptide binding]; other site 349102001239 active site 349102001240 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 349102001241 homopentamer interface [polypeptide binding]; other site 349102001242 active site 349102001243 transcription antitermination factor NusB; Region: nusB; TIGR01951 349102001244 putative RNA binding site [nucleotide binding]; other site 349102001245 Protein of unknown function, DUF481; Region: DUF481; pfam04338 349102001246 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 349102001247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102001248 Coenzyme A binding pocket [chemical binding]; other site 349102001249 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 349102001250 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102001251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102001252 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102001253 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102001254 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102001255 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102001256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102001257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102001258 Transposase; Region: HTH_Tnp_1; pfam01527 349102001259 hypothetical protein; Region: PHA00662 349102001260 hypothetical protein; Region: PHA00661 349102001261 structural protein; Region: PHA01972 349102001262 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 349102001263 catalytic residue [active] 349102001264 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 349102001265 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 349102001266 dimer interface [polypeptide binding]; other site 349102001267 ssDNA binding site [nucleotide binding]; other site 349102001268 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349102001269 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349102001270 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 349102001271 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102001272 catalytic residue [active] 349102001273 seryl-tRNA synthetase; Provisional; Region: PRK05431 349102001274 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 349102001275 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 349102001276 dimer interface [polypeptide binding]; other site 349102001277 active site 349102001278 motif 1; other site 349102001279 motif 2; other site 349102001280 motif 3; other site 349102001281 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 349102001282 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 349102001283 E-class dimer interface [polypeptide binding]; other site 349102001284 P-class dimer interface [polypeptide binding]; other site 349102001285 active site 349102001286 Cu2+ binding site [ion binding]; other site 349102001287 Zn2+ binding site [ion binding]; other site 349102001288 Preprotein translocase subunit; Region: YajC; pfam02699 349102001289 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 349102001290 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 349102001291 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 349102001292 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 349102001293 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 349102001294 Protein export membrane protein; Region: SecD_SecF; pfam02355 349102001295 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 349102001296 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 349102001297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102001298 Walker A/P-loop; other site 349102001299 ATP binding site [chemical binding]; other site 349102001300 Q-loop/lid; other site 349102001301 ABC transporter signature motif; other site 349102001302 Walker B; other site 349102001303 D-loop; other site 349102001304 H-loop/switch region; other site 349102001305 CcmB protein; Region: CcmB; pfam03379 349102001306 heme exporter protein CcmC; Region: ccmC; TIGR01191 349102001307 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 349102001308 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349102001309 catalytic residues [active] 349102001310 central insert; other site 349102001311 aconitate hydratase; Validated; Region: PRK09277 349102001312 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 349102001313 substrate binding site [chemical binding]; other site 349102001314 ligand binding site [chemical binding]; other site 349102001315 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 349102001316 substrate binding site [chemical binding]; other site 349102001317 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 349102001318 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 349102001319 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 349102001320 active site 349102001321 HIGH motif; other site 349102001322 dimer interface [polypeptide binding]; other site 349102001323 KMSKS motif; other site 349102001324 Rhomboid family; Region: Rhomboid; cl11446 349102001325 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 349102001326 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 349102001327 PII uridylyl-transferase; Provisional; Region: PRK05092 349102001328 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349102001329 metal binding triad; other site 349102001330 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349102001331 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349102001332 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349102001333 Zn2+ binding site [ion binding]; other site 349102001334 Mg2+ binding site [ion binding]; other site 349102001335 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349102001336 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 349102001337 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102001338 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 349102001339 putative ligand binding site [chemical binding]; other site 349102001340 Predicted methyltransferases [General function prediction only]; Region: COG0313 349102001341 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 349102001342 putative SAM binding site [chemical binding]; other site 349102001343 putative homodimer interface [polypeptide binding]; other site 349102001344 hypothetical protein; Provisional; Region: PRK14676 349102001345 glutathione synthetase; Provisional; Region: PRK05246 349102001346 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 349102001347 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 349102001348 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102001349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102001350 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102001351 Integrase core domain; Region: rve_3; pfam13683 349102001352 Helix-turn-helix domain; Region: HTH_38; pfam13936 349102001353 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 349102001354 Transposase domain (DUF772); Region: DUF772; pfam05598 349102001355 Transposase [DNA replication, recombination, and repair]; Region: COG5421 349102001356 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 349102001357 catalytic core [active] 349102001358 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 349102001359 homotrimer interface [polypeptide binding]; other site 349102001360 Walker A motif; other site 349102001361 GTP binding site [chemical binding]; other site 349102001362 Walker B motif; other site 349102001363 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 349102001364 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102001365 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 349102001366 Protein of unknown function, DUF399; Region: DUF399; pfam04187 349102001367 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 349102001368 Flavoprotein; Region: Flavoprotein; pfam02441 349102001369 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 349102001370 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 349102001371 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 349102001372 tellurite resistance protein terB; Region: terB; cd07176 349102001373 putative metal binding site [ion binding]; other site 349102001374 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 349102001375 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102001376 active site 349102001377 nucleotide binding site [chemical binding]; other site 349102001378 HIGH motif; other site 349102001379 KMSKS motif; other site 349102001380 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 349102001381 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 349102001382 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 349102001383 active site 349102001384 (T/H)XGH motif; other site 349102001385 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 349102001386 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102001387 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102001388 ABC transporter; Region: ABC_tran_2; pfam12848 349102001389 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102001390 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 349102001391 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 349102001392 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 349102001393 DNA-binding site [nucleotide binding]; DNA binding site 349102001394 RNA-binding motif; other site 349102001395 Sulfatase; Region: Sulfatase; cl17466 349102001396 choline-sulfatase; Region: chol_sulfatase; TIGR03417 349102001397 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 349102001398 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 349102001399 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 349102001400 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 349102001401 EamA-like transporter family; Region: EamA; cl17759 349102001402 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 349102001403 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102001404 active site 349102001405 HIGH motif; other site 349102001406 nucleotide binding site [chemical binding]; other site 349102001407 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 349102001408 active site 349102001409 KMSKS motif; other site 349102001410 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 349102001411 tRNA binding surface [nucleotide binding]; other site 349102001412 anticodon binding site; other site 349102001413 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349102001414 hypothetical protein; Provisional; Region: PRK05415 349102001415 Domain of unknown function (DUF697); Region: DUF697; cl12064 349102001416 YcjX-like family, DUF463; Region: DUF463; pfam04317 349102001417 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 349102001418 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 349102001419 dimerization interface 3.5A [polypeptide binding]; other site 349102001420 active site 349102001421 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349102001422 active site 349102001423 catalytic site [active] 349102001424 substrate binding site [chemical binding]; other site 349102001425 Response regulator receiver domain; Region: Response_reg; pfam00072 349102001426 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 349102001427 active site 349102001428 phosphorylation site [posttranslational modification] 349102001429 intermolecular recognition site; other site 349102001430 dimerization interface [polypeptide binding]; other site 349102001431 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 349102001432 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 349102001433 ligand binding site [chemical binding]; other site 349102001434 flexible hinge region; other site 349102001435 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 349102001436 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349102001437 metal binding triad; other site 349102001438 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 349102001439 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 349102001440 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 349102001441 Na binding site [ion binding]; other site 349102001442 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 349102001443 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 349102001444 adenylate kinase; Reviewed; Region: adk; PRK00279 349102001445 AMP-binding site [chemical binding]; other site 349102001446 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349102001447 acetyl-CoA synthetase; Provisional; Region: PRK00174 349102001448 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 349102001449 active site 349102001450 CoA binding site [chemical binding]; other site 349102001451 acyl-activating enzyme (AAE) consensus motif; other site 349102001452 AMP binding site [chemical binding]; other site 349102001453 acetate binding site [chemical binding]; other site 349102001454 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349102001455 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 349102001456 Sulfate transporter family; Region: Sulfate_transp; pfam00916 349102001457 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 349102001458 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 349102001459 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 349102001460 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 349102001461 ATP binding site [chemical binding]; other site 349102001462 substrate interface [chemical binding]; other site 349102001463 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 349102001464 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 349102001465 active site 349102001466 Zn binding site [ion binding]; other site 349102001467 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 349102001468 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 349102001469 B1 nucleotide binding pocket [chemical binding]; other site 349102001470 B2 nucleotide binding pocket [chemical binding]; other site 349102001471 CAS motifs; other site 349102001472 active site 349102001473 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 349102001474 gliding motility-associated protein GldE; Region: GldE; TIGR03520 349102001475 recombination protein RecR; Reviewed; Region: recR; PRK00076 349102001476 RecR protein; Region: RecR; pfam02132 349102001477 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 349102001478 putative active site [active] 349102001479 putative metal-binding site [ion binding]; other site 349102001480 tetramer interface [polypeptide binding]; other site 349102001481 hypothetical protein; Validated; Region: PRK00153 349102001482 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 349102001483 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 349102001484 Walker A motif; other site 349102001485 ATP binding site [chemical binding]; other site 349102001486 Walker B motif; other site 349102001487 arginine finger; other site 349102001488 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 349102001489 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 349102001490 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 349102001491 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 349102001492 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 349102001493 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 349102001494 putative NADH binding site [chemical binding]; other site 349102001495 putative active site [active] 349102001496 nudix motif; other site 349102001497 putative metal binding site [ion binding]; other site 349102001498 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 349102001499 hydrophobic ligand binding site; other site 349102001500 prephenate dehydratase; Provisional; Region: PRK11899 349102001501 Prephenate dehydratase; Region: PDT; pfam00800 349102001502 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 349102001503 putative L-Phe binding site [chemical binding]; other site 349102001504 Cytochrome c; Region: Cytochrom_C; cl11414 349102001505 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349102001506 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 349102001507 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 349102001508 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 349102001509 dimer interface [polypeptide binding]; other site 349102001510 conserved gate region; other site 349102001511 ABC-ATPase subunit interface; other site 349102001512 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 349102001513 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 349102001514 dimer interface [polypeptide binding]; other site 349102001515 conserved gate region; other site 349102001516 putative PBP binding loops; other site 349102001517 ABC-ATPase subunit interface; other site 349102001518 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 349102001519 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102001520 Walker A/P-loop; other site 349102001521 ATP binding site [chemical binding]; other site 349102001522 Q-loop/lid; other site 349102001523 ABC transporter signature motif; other site 349102001524 Walker B; other site 349102001525 D-loop; other site 349102001526 H-loop/switch region; other site 349102001527 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 349102001528 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102001529 Walker A/P-loop; other site 349102001530 ATP binding site [chemical binding]; other site 349102001531 Q-loop/lid; other site 349102001532 ABC transporter signature motif; other site 349102001533 Walker B; other site 349102001534 D-loop; other site 349102001535 H-loop/switch region; other site 349102001536 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102001537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349102001538 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 349102001539 putative ADP-binding pocket [chemical binding]; other site 349102001540 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 349102001541 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 349102001542 FeS/SAM binding site; other site 349102001543 HemN C-terminal domain; Region: HemN_C; pfam06969 349102001544 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 349102001545 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102001546 ligand binding site [chemical binding]; other site 349102001547 flexible hinge region; other site 349102001548 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 349102001549 putative switch regulator; other site 349102001550 non-specific DNA interactions [nucleotide binding]; other site 349102001551 DNA binding site [nucleotide binding] 349102001552 sequence specific DNA binding site [nucleotide binding]; other site 349102001553 putative cAMP binding site [chemical binding]; other site 349102001554 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 349102001555 Ligand Binding Site [chemical binding]; other site 349102001556 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 349102001557 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 349102001558 Low-spin heme binding site [chemical binding]; other site 349102001559 Putative water exit pathway; other site 349102001560 Binuclear center (active site) [active] 349102001561 Putative proton exit pathway; other site 349102001562 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 349102001563 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 349102001564 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 349102001565 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 349102001566 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 349102001567 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 349102001568 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 349102001569 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349102001570 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 349102001571 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 349102001572 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 349102001573 FixH; Region: FixH; pfam05751 349102001574 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349102001575 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 349102001576 metal-binding site [ion binding] 349102001577 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349102001578 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349102001579 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 349102001580 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349102001581 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349102001582 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 349102001583 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 349102001584 motif II; other site 349102001585 Uncharacterized conserved protein [Function unknown]; Region: COG2127 349102001586 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 349102001587 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 349102001588 S-adenosylmethionine binding site [chemical binding]; other site 349102001589 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 349102001590 classical (c) SDRs; Region: SDR_c; cd05233 349102001591 NAD(P) binding site [chemical binding]; other site 349102001592 active site 349102001593 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 349102001594 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 349102001595 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 349102001596 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 349102001597 substrate binding site [chemical binding]; other site 349102001598 active site 349102001599 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 349102001600 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 349102001601 domain interfaces; other site 349102001602 active site 349102001603 Predicted permeases [General function prediction only]; Region: COG0679 349102001604 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 349102001605 putative hydrolase; Provisional; Region: PRK02113 349102001606 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349102001607 active site 349102001608 DNA polymerase III subunit delta'; Validated; Region: PRK07471 349102001609 DNA polymerase III subunit delta'; Validated; Region: PRK08485 349102001610 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 349102001611 active site 349102001612 TolQ protein; Region: tolQ; TIGR02796 349102001613 TolR protein; Region: tolR; TIGR02801 349102001614 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 349102001615 translocation protein TolB; Provisional; Region: tolB; PRK05137 349102001616 TolB amino-terminal domain; Region: TolB_N; pfam04052 349102001617 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349102001618 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349102001619 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349102001620 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349102001621 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102001622 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102001623 ligand binding site [chemical binding]; other site 349102001624 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 349102001625 Tetratricopeptide repeat; Region: TPR_6; pfam13174 349102001626 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 349102001627 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 349102001628 Ligand Binding Site [chemical binding]; other site 349102001629 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 349102001630 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 349102001631 Walker A motif; other site 349102001632 ATP binding site [chemical binding]; other site 349102001633 Walker B motif; other site 349102001634 arginine finger; other site 349102001635 Peptidase family M41; Region: Peptidase_M41; pfam01434 349102001636 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 349102001637 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 349102001638 S-adenosylmethionine binding site [chemical binding]; other site 349102001639 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 349102001640 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 349102001641 Potassium binding sites [ion binding]; other site 349102001642 Cesium cation binding sites [ion binding]; other site 349102001643 Chorismate mutase type II; Region: CM_2; smart00830 349102001644 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 349102001645 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 349102001646 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 349102001647 homodimer interface [polypeptide binding]; other site 349102001648 NADP binding site [chemical binding]; other site 349102001649 substrate binding site [chemical binding]; other site 349102001650 LytTr DNA-binding domain; Region: LytTR; smart00850 349102001651 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102001652 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 349102001653 putative active site [active] 349102001654 putative metal binding site [ion binding]; other site 349102001655 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 349102001656 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 349102001657 ATP binding site [chemical binding]; other site 349102001658 putative Mg++ binding site [ion binding]; other site 349102001659 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 349102001660 nucleotide binding region [chemical binding]; other site 349102001661 ATP-binding site [chemical binding]; other site 349102001662 DEAD/H associated; Region: DEAD_assoc; pfam08494 349102001663 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 349102001664 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102001665 putative active site [active] 349102001666 metal binding site [ion binding]; metal-binding site 349102001667 homodimer binding site [polypeptide binding]; other site 349102001668 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 349102001669 transmembrane helices; other site 349102001670 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349102001671 TrkA-C domain; Region: TrkA_C; pfam02080 349102001672 TrkA-C domain; Region: TrkA_C; pfam02080 349102001673 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 349102001674 hypothetical protein; Validated; Region: PRK00110 349102001675 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349102001676 EamA-like transporter family; Region: EamA; pfam00892 349102001677 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 349102001678 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349102001679 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349102001680 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 349102001681 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 349102001682 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349102001683 NAD binding site [chemical binding]; other site 349102001684 homodimer interface [polypeptide binding]; other site 349102001685 active site 349102001686 substrate binding site [chemical binding]; other site 349102001687 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349102001688 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 349102001689 active site 349102001690 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349102001691 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 349102001692 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102001693 catalytic residue [active] 349102001694 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 349102001695 substrate binding site [chemical binding]; other site 349102001696 multimerization interface [polypeptide binding]; other site 349102001697 ATP binding site [chemical binding]; other site 349102001698 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 349102001699 thiamine phosphate binding site [chemical binding]; other site 349102001700 active site 349102001701 pyrophosphate binding site [ion binding]; other site 349102001702 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 349102001703 dimer interface [polypeptide binding]; other site 349102001704 substrate binding site [chemical binding]; other site 349102001705 ATP binding site [chemical binding]; other site 349102001706 NMT1/THI5 like; Region: NMT1; pfam09084 349102001707 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 349102001708 membrane-bound complex binding site; other site 349102001709 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 349102001710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102001711 Walker A/P-loop; other site 349102001712 ATP binding site [chemical binding]; other site 349102001713 Q-loop/lid; other site 349102001714 ABC transporter signature motif; other site 349102001715 Walker B; other site 349102001716 D-loop; other site 349102001717 H-loop/switch region; other site 349102001718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349102001719 MASE1; Region: MASE1; cl17823 349102001720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102001721 Histidine kinase; Region: HisKA_2; pfam07568 349102001722 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 349102001723 ATP binding site [chemical binding]; other site 349102001724 Mg2+ binding site [ion binding]; other site 349102001725 G-X-G motif; other site 349102001726 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349102001727 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 349102001728 hinge; other site 349102001729 active site 349102001730 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 349102001731 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 349102001732 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 349102001733 NAD binding site [chemical binding]; other site 349102001734 dimerization interface [polypeptide binding]; other site 349102001735 product binding site; other site 349102001736 substrate binding site [chemical binding]; other site 349102001737 zinc binding site [ion binding]; other site 349102001738 catalytic residues [active] 349102001739 hypothetical protein; Provisional; Region: PRK02853 349102001740 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349102001741 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349102001742 active site 349102001743 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 349102001744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349102001745 Coenzyme A binding pocket [chemical binding]; other site 349102001746 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 349102001747 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349102001748 putative active site [active] 349102001749 catalytic triad [active] 349102001750 putative dimer interface [polypeptide binding]; other site 349102001751 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 349102001752 rRNA binding site [nucleotide binding]; other site 349102001753 predicted 30S ribosome binding site; other site 349102001754 Maf-like protein; Reviewed; Region: PRK00078 349102001755 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 349102001756 active site 349102001757 dimer interface [polypeptide binding]; other site 349102001758 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 349102001759 RNA binding site [nucleotide binding]; other site 349102001760 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 349102001761 Domain of unknown function (DUF329); Region: DUF329; pfam03884 349102001762 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 349102001763 response regulator; Provisional; Region: PRK13435 349102001764 Domain of unknown function (DUF892); Region: DUF892; pfam05974 349102001765 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 349102001766 dimanganese center [ion binding]; other site 349102001767 Domain of unknown function (DUF378); Region: DUF378; pfam04070 349102001768 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 349102001769 Serine hydrolase; Region: Ser_hydrolase; cl17834 349102001770 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349102001771 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349102001772 DNA binding site [nucleotide binding] 349102001773 domain linker motif; other site 349102001774 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 349102001775 putative dimerization interface [polypeptide binding]; other site 349102001776 putative ligand binding site [chemical binding]; other site 349102001777 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 349102001778 active site 349102001779 phosphorylation site [posttranslational modification] 349102001780 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 349102001781 dimerization domain swap beta strand [polypeptide binding]; other site 349102001782 regulatory protein interface [polypeptide binding]; other site 349102001783 active site 349102001784 regulatory phosphorylation site [posttranslational modification]; other site 349102001785 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 349102001786 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 349102001787 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 349102001788 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349102001789 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 349102001790 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 349102001791 putative substrate binding site [chemical binding]; other site 349102001792 putative ATP binding site [chemical binding]; other site 349102001793 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 349102001794 active site 349102001795 P-loop; other site 349102001796 phosphorylation site [posttranslational modification] 349102001797 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 349102001798 active site 349102001799 P-loop; other site 349102001800 phosphorylation site [posttranslational modification] 349102001801 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 349102001802 protease TldD; Provisional; Region: tldD; PRK10735 349102001803 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 349102001804 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 349102001805 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 349102001806 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 349102001807 UbiA prenyltransferase family; Region: UbiA; pfam01040 349102001808 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 349102001809 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 349102001810 Subunit III/VIIa interface [polypeptide binding]; other site 349102001811 Phospholipid binding site [chemical binding]; other site 349102001812 Subunit I/III interface [polypeptide binding]; other site 349102001813 Subunit III/VIb interface [polypeptide binding]; other site 349102001814 Subunit III/VIa interface; other site 349102001815 Subunit III/Vb interface [polypeptide binding]; other site 349102001816 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 349102001817 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 349102001818 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 349102001819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102001820 catalytic residue [active] 349102001821 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349102001822 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349102001823 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349102001824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349102001825 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349102001826 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349102001827 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 349102001828 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349102001829 FAD binding domain; Region: FAD_binding_4; pfam01565 349102001830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102001831 active site 349102001832 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 349102001833 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 349102001834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102001835 Coenzyme A binding pocket [chemical binding]; other site 349102001836 EcsC protein family; Region: EcsC; pfam12787 349102001837 Intracellular septation protein A; Region: IspA; pfam04279 349102001838 EamA-like transporter family; Region: EamA; cl17759 349102001839 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 349102001840 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 349102001841 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 349102001842 P loop; other site 349102001843 GTP binding site [chemical binding]; other site 349102001844 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 349102001845 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 349102001846 generic binding surface II; other site 349102001847 generic binding surface I; other site 349102001848 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 349102001849 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 349102001850 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 349102001851 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 349102001852 aspartate kinase; Reviewed; Region: PRK06635 349102001853 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 349102001854 putative nucleotide binding site [chemical binding]; other site 349102001855 putative catalytic residues [active] 349102001856 putative Mg ion binding site [ion binding]; other site 349102001857 putative aspartate binding site [chemical binding]; other site 349102001858 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 349102001859 putative allosteric regulatory site; other site 349102001860 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 349102001861 putative allosteric regulatory residue; other site 349102001862 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 349102001863 GAF domain; Region: GAF; pfam01590 349102001864 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 349102001865 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 349102001866 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349102001867 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 349102001868 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 349102001869 homodimer interface [polypeptide binding]; other site 349102001870 substrate-cofactor binding pocket; other site 349102001871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102001872 catalytic residue [active] 349102001873 putative GTP cyclohydrolase; Provisional; Region: PRK13674 349102001874 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 349102001875 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349102001876 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102001877 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 349102001878 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102001879 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 349102001880 dimer interface [polypeptide binding]; other site 349102001881 motif 1; other site 349102001882 active site 349102001883 motif 2; other site 349102001884 motif 3; other site 349102001885 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 349102001886 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 349102001887 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 349102001888 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 349102001889 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349102001890 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349102001891 Dihydroneopterin aldolase; Region: FolB; smart00905 349102001892 active site 349102001893 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 349102001894 dihydropteroate synthase; Region: DHPS; TIGR01496 349102001895 substrate binding pocket [chemical binding]; other site 349102001896 dimer interface [polypeptide binding]; other site 349102001897 inhibitor binding site; inhibition site 349102001898 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 349102001899 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 349102001900 active site 349102001901 substrate binding site [chemical binding]; other site 349102001902 metal binding site [ion binding]; metal-binding site 349102001903 ketol-acid reductoisomerase; Provisional; Region: PRK05479 349102001904 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 349102001905 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 349102001906 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 349102001907 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102001908 AsnC family; Region: AsnC_trans_reg; pfam01037 349102001909 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 349102001910 putative DNA binding site [nucleotide binding]; other site 349102001911 putative Zn2+ binding site [ion binding]; other site 349102001912 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102001913 AsnC family; Region: AsnC_trans_reg; pfam01037 349102001914 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 349102001915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102001916 catalytic residue [active] 349102001917 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 349102001918 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349102001919 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 349102001920 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349102001921 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 349102001922 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102001923 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349102001924 DNA-binding site [nucleotide binding]; DNA binding site 349102001925 FCD domain; Region: FCD; pfam07729 349102001926 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 349102001927 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 349102001928 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349102001929 DXD motif; other site 349102001930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349102001931 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102001932 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 349102001933 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 349102001934 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 349102001935 catalytic site [active] 349102001936 subunit interface [polypeptide binding]; other site 349102001937 Yqey-like protein; Region: YqeY; pfam09424 349102001938 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 349102001939 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 349102001940 Subunit I/III interface [polypeptide binding]; other site 349102001941 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 349102001942 D-pathway; other site 349102001943 Subunit I/VIIc interface [polypeptide binding]; other site 349102001944 Subunit I/IV interface [polypeptide binding]; other site 349102001945 Subunit I/II interface [polypeptide binding]; other site 349102001946 Low-spin heme (heme a) binding site [chemical binding]; other site 349102001947 Subunit I/VIIa interface [polypeptide binding]; other site 349102001948 Subunit I/VIa interface [polypeptide binding]; other site 349102001949 Dimer interface; other site 349102001950 Putative water exit pathway; other site 349102001951 Binuclear center (heme a3/CuB) [ion binding]; other site 349102001952 K-pathway; other site 349102001953 Subunit I/Vb interface [polypeptide binding]; other site 349102001954 Putative proton exit pathway; other site 349102001955 Subunit I/VIb interface; other site 349102001956 Subunit I/VIc interface [polypeptide binding]; other site 349102001957 Electron transfer pathway; other site 349102001958 Subunit I/VIIIb interface [polypeptide binding]; other site 349102001959 Subunit I/VIIb interface [polypeptide binding]; other site 349102001960 lipoate-protein ligase B; Provisional; Region: PRK14341 349102001961 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349102001962 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 349102001963 Walker A/P-loop; other site 349102001964 ATP binding site [chemical binding]; other site 349102001965 Q-loop/lid; other site 349102001966 ABC transporter signature motif; other site 349102001967 Walker B; other site 349102001968 D-loop; other site 349102001969 H-loop/switch region; other site 349102001970 TOBE domain; Region: TOBE_2; pfam08402 349102001971 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349102001972 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102001973 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349102001974 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 349102001975 dimer interface [polypeptide binding]; other site 349102001976 conserved gate region; other site 349102001977 putative PBP binding loops; other site 349102001978 ABC-ATPase subunit interface; other site 349102001979 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349102001980 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 349102001981 dimer interface [polypeptide binding]; other site 349102001982 conserved gate region; other site 349102001983 putative PBP binding loops; other site 349102001984 ABC-ATPase subunit interface; other site 349102001985 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 349102001986 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 349102001987 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 349102001988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102001989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102001990 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 349102001991 dimerization interface [polypeptide binding]; other site 349102001992 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349102001993 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 349102001994 NAD(P) binding site [chemical binding]; other site 349102001995 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349102001996 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 349102001997 non-specific DNA binding site [nucleotide binding]; other site 349102001998 salt bridge; other site 349102001999 sequence-specific DNA binding site [nucleotide binding]; other site 349102002000 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349102002001 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 349102002002 active site 349102002003 pyruvate carboxylase; Reviewed; Region: PRK12999 349102002004 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349102002005 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349102002006 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349102002007 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 349102002008 active site 349102002009 catalytic residues [active] 349102002010 metal binding site [ion binding]; metal-binding site 349102002011 homodimer binding site [polypeptide binding]; other site 349102002012 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 349102002013 carboxyltransferase (CT) interaction site; other site 349102002014 biotinylation site [posttranslational modification]; other site 349102002015 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 349102002016 Part of AAA domain; Region: AAA_19; pfam13245 349102002017 Family description; Region: UvrD_C_2; pfam13538 349102002018 benzoate transporter; Region: benE; TIGR00843 349102002019 benzoate transporter; Region: benE; TIGR00843 349102002020 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 349102002021 Domain of unknown function DUF59; Region: DUF59; pfam01883 349102002022 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 349102002023 cell division protein MraZ; Reviewed; Region: PRK00326 349102002024 MraZ protein; Region: MraZ; pfam02381 349102002025 MraZ protein; Region: MraZ; pfam02381 349102002026 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 349102002027 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 349102002028 S-adenosylmethionine binding site [chemical binding]; other site 349102002029 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 349102002030 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349102002031 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349102002032 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349102002033 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 349102002034 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349102002035 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349102002036 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 349102002037 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349102002038 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349102002039 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 349102002040 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 349102002041 Mg++ binding site [ion binding]; other site 349102002042 putative catalytic motif [active] 349102002043 putative substrate binding site [chemical binding]; other site 349102002044 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 349102002045 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 349102002046 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349102002047 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349102002048 Uncharacterized conserved protein [Function unknown]; Region: COG3791 349102002049 cell division protein FtsW; Region: ftsW; TIGR02614 349102002050 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 349102002051 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 349102002052 active site 349102002053 homodimer interface [polypeptide binding]; other site 349102002054 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 349102002055 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349102002056 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349102002057 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349102002058 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 349102002059 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 349102002060 FAD binding domain; Region: FAD_binding_4; pfam01565 349102002061 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 349102002062 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 349102002063 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 349102002064 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349102002065 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 349102002066 Cell division protein FtsQ; Region: FtsQ; pfam03799 349102002067 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 349102002068 Cell division protein FtsA; Region: FtsA; smart00842 349102002069 Cell division protein FtsA; Region: FtsA; pfam14450 349102002070 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 349102002071 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 349102002072 nucleotide binding site [chemical binding]; other site 349102002073 SulA interaction site; other site 349102002074 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 349102002075 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 349102002076 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 349102002077 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 349102002078 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 349102002079 Walker A/P-loop; other site 349102002080 ATP binding site [chemical binding]; other site 349102002081 Q-loop/lid; other site 349102002082 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 349102002083 ABC transporter signature motif; other site 349102002084 Walker B; other site 349102002085 D-loop; other site 349102002086 H-loop/switch region; other site 349102002087 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 349102002088 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349102002089 FAD binding domain; Region: FAD_binding_4; pfam01565 349102002090 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 349102002091 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 349102002092 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 349102002093 B12 binding site [chemical binding]; other site 349102002094 cobalt ligand [ion binding]; other site 349102002095 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349102002096 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 349102002097 FeS/SAM binding site; other site 349102002098 methionine synthase I; Validated; Region: PRK07534 349102002099 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349102002100 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 349102002101 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 349102002102 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 349102002103 ATP binding site [chemical binding]; other site 349102002104 active site 349102002105 substrate binding site [chemical binding]; other site 349102002106 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 349102002107 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 349102002108 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 349102002109 putative active site [active] 349102002110 catalytic triad [active] 349102002111 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 349102002112 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 349102002113 dimer interface [polypeptide binding]; other site 349102002114 phosphorylation site [posttranslational modification] 349102002115 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 349102002116 ATP binding site [chemical binding]; other site 349102002117 Mg2+ binding site [ion binding]; other site 349102002118 G-X-G motif; other site 349102002119 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349102002120 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 349102002121 active site 349102002122 phosphorylation site [posttranslational modification] 349102002123 intermolecular recognition site; other site 349102002124 dimerization interface [polypeptide binding]; other site 349102002125 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 349102002126 Walker A motif; other site 349102002127 ATP binding site [chemical binding]; other site 349102002128 Walker B motif; other site 349102002129 arginine finger; other site 349102002130 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102002131 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 349102002132 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 349102002133 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 349102002134 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 349102002135 CPxP motif; other site 349102002136 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 349102002137 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 349102002138 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 349102002139 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 349102002140 fumarate hydratase; Reviewed; Region: fumC; PRK00485 349102002141 Class II fumarases; Region: Fumarase_classII; cd01362 349102002142 active site 349102002143 tetramer interface [polypeptide binding]; other site 349102002144 Stringent starvation protein B; Region: SspB; pfam04386 349102002145 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 349102002146 Putative phage integrase; Region: Phage_Integr_2; pfam13009 349102002147 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 349102002148 DNA binding site [nucleotide binding] 349102002149 active site 349102002150 Int/Topo IB signature motif; other site 349102002151 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349102002152 DNA binding site [nucleotide binding] 349102002153 active site 349102002154 Int/Topo IB signature motif; other site 349102002155 catalytic residues [active] 349102002156 Integrase core domain; Region: rve_3; pfam13683 349102002157 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102002158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102002159 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102002160 Homeodomain-like domain; Region: HTH_32; pfam13565 349102002161 Integrase core domain; Region: rve; pfam00665 349102002162 Integrase core domain; Region: rve_3; pfam13683 349102002163 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102002164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102002165 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102002166 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102002167 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102002168 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102002169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102002170 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102002171 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102002172 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 349102002173 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 349102002174 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 349102002175 HTH-like domain; Region: HTH_21; pfam13276 349102002176 Integrase core domain; Region: rve; pfam00665 349102002177 Integrase core domain; Region: rve_3; pfam13683 349102002178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102002179 Transposase; Region: HTH_Tnp_1; cl17663 349102002180 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 349102002181 Chromate transporter; Region: Chromate_transp; pfam02417 349102002182 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 349102002183 active site residue [active] 349102002184 Uncharacterized conserved protein [Function unknown]; Region: COG4275 349102002185 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 349102002186 active site residue [active] 349102002187 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 349102002188 Uncharacterized conserved protein [Function unknown]; Region: COG0398 349102002189 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349102002190 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 349102002191 active site residue [active] 349102002192 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 349102002193 active site residue [active] 349102002194 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349102002195 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102002196 Walker A/P-loop; other site 349102002197 ATP binding site [chemical binding]; other site 349102002198 Q-loop/lid; other site 349102002199 ABC transporter signature motif; other site 349102002200 Walker B; other site 349102002201 D-loop; other site 349102002202 H-loop/switch region; other site 349102002203 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102002204 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 349102002205 putative PBP binding loops; other site 349102002206 ABC-ATPase subunit interface; other site 349102002207 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102002208 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 349102002209 putative PBP binding loops; other site 349102002210 dimer interface [polypeptide binding]; other site 349102002211 ABC-ATPase subunit interface; other site 349102002212 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 349102002213 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102002214 membrane-bound complex binding site; other site 349102002215 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 349102002216 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 349102002217 active site 349102002218 iron coordination sites [ion binding]; other site 349102002219 substrate binding pocket [chemical binding]; other site 349102002220 maleylacetoacetate isomerase; Region: maiA; TIGR01262 349102002221 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349102002222 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 349102002223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102002224 catalytic residue [active] 349102002225 serine O-acetyltransferase; Region: cysE; TIGR01172 349102002226 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 349102002227 trimer interface [polypeptide binding]; other site 349102002228 active site 349102002229 substrate binding site [chemical binding]; other site 349102002230 CoA binding site [chemical binding]; other site 349102002231 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 349102002232 active site residue [active] 349102002233 Serine hydrolase; Region: Ser_hydrolase; pfam06821 349102002234 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349102002235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 349102002236 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 349102002237 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 349102002238 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349102002239 PYR/PP interface [polypeptide binding]; other site 349102002240 dimer interface [polypeptide binding]; other site 349102002241 TPP binding site [chemical binding]; other site 349102002242 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349102002243 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349102002244 TPP-binding site [chemical binding]; other site 349102002245 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102002246 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 349102002247 dimer interface [polypeptide binding]; other site 349102002248 conserved gate region; other site 349102002249 putative PBP binding loops; other site 349102002250 ABC-ATPase subunit interface; other site 349102002251 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349102002252 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102002253 Walker A/P-loop; other site 349102002254 ATP binding site [chemical binding]; other site 349102002255 Q-loop/lid; other site 349102002256 ABC transporter signature motif; other site 349102002257 Walker B; other site 349102002258 D-loop; other site 349102002259 H-loop/switch region; other site 349102002260 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 349102002261 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 349102002262 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 349102002263 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102002264 substrate binding pocket [chemical binding]; other site 349102002265 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102002266 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 349102002267 dimer interface [polypeptide binding]; other site 349102002268 conserved gate region; other site 349102002269 ABC-ATPase subunit interface; other site 349102002270 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 349102002271 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102002272 Walker A/P-loop; other site 349102002273 ATP binding site [chemical binding]; other site 349102002274 Q-loop/lid; other site 349102002275 ABC transporter signature motif; other site 349102002276 Walker B; other site 349102002277 D-loop; other site 349102002278 H-loop/switch region; other site 349102002279 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 349102002280 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_2; cd02763 349102002281 putative [Fe4-S4] binding site [ion binding]; other site 349102002282 putative molybdopterin cofactor binding site [chemical binding]; other site 349102002283 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 349102002284 molybdopterin cofactor binding site; other site 349102002285 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 349102002286 4Fe-4S binding domain; Region: Fer4; pfam00037 349102002287 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 349102002288 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 349102002289 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 349102002290 active site 349102002291 non-prolyl cis peptide bond; other site 349102002292 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349102002293 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349102002294 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349102002295 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 349102002296 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349102002297 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 349102002298 nitrogenase iron protein; Region: nifH; TIGR01287 349102002299 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 349102002300 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 349102002301 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 349102002302 homodimer interface [polypeptide binding]; other site 349102002303 substrate-cofactor binding pocket; other site 349102002304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102002305 catalytic residue [active] 349102002306 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 349102002307 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102002308 membrane-bound complex binding site; other site 349102002309 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102002310 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 349102002311 dimer interface [polypeptide binding]; other site 349102002312 conserved gate region; other site 349102002313 putative PBP binding loops; other site 349102002314 ABC-ATPase subunit interface; other site 349102002315 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349102002316 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102002317 Walker A/P-loop; other site 349102002318 ATP binding site [chemical binding]; other site 349102002319 Q-loop/lid; other site 349102002320 ABC transporter signature motif; other site 349102002321 Walker B; other site 349102002322 D-loop; other site 349102002323 H-loop/switch region; other site 349102002324 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 349102002325 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 349102002326 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102002327 catalytic residue [active] 349102002328 OsmC-like protein; Region: OsmC; pfam02566 349102002329 acetyl-CoA synthetase; Provisional; Region: PRK00174 349102002330 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 349102002331 active site 349102002332 CoA binding site [chemical binding]; other site 349102002333 acyl-activating enzyme (AAE) consensus motif; other site 349102002334 AMP binding site [chemical binding]; other site 349102002335 acetate binding site [chemical binding]; other site 349102002336 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349102002337 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349102002338 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 349102002339 conserved gate region; other site 349102002340 ABC-ATPase subunit interface; other site 349102002341 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 349102002342 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 349102002343 Walker A/P-loop; other site 349102002344 ATP binding site [chemical binding]; other site 349102002345 Q-loop/lid; other site 349102002346 ABC transporter signature motif; other site 349102002347 Walker B; other site 349102002348 D-loop; other site 349102002349 H-loop/switch region; other site 349102002350 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349102002351 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349102002352 acyl-CoA synthetase; Validated; Region: PRK08162 349102002353 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102002354 acyl-activating enzyme (AAE) consensus motif; other site 349102002355 AMP binding site [chemical binding]; other site 349102002356 active site 349102002357 CoA binding site [chemical binding]; other site 349102002358 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102002359 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 349102002360 dimerization interface [polypeptide binding]; other site 349102002361 putative DNA binding site [nucleotide binding]; other site 349102002362 putative Zn2+ binding site [ion binding]; other site 349102002363 AsnC family; Region: AsnC_trans_reg; pfam01037 349102002364 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 349102002365 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349102002366 Walker A/P-loop; other site 349102002367 ATP binding site [chemical binding]; other site 349102002368 Q-loop/lid; other site 349102002369 ABC transporter signature motif; other site 349102002370 Walker B; other site 349102002371 D-loop; other site 349102002372 H-loop/switch region; other site 349102002373 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 349102002374 dimer interface [polypeptide binding]; other site 349102002375 conserved gate region; other site 349102002376 putative PBP binding loops; other site 349102002377 ABC-ATPase subunit interface; other site 349102002378 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349102002379 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 349102002380 dimer interface [polypeptide binding]; other site 349102002381 conserved gate region; other site 349102002382 putative PBP binding loops; other site 349102002383 ABC-ATPase subunit interface; other site 349102002384 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 349102002385 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349102002386 Predicted transcriptional regulator [Transcription]; Region: COG1959 349102002387 Transcriptional regulator; Region: Rrf2; pfam02082 349102002388 Transposase; Region: HTH_Tnp_1; cl17663 349102002389 Transposase domain (DUF772); Region: DUF772; pfam05598 349102002390 Fusaric acid resistance protein family; Region: FUSC; pfam04632 349102002391 HTH-like domain; Region: HTH_21; pfam13276 349102002392 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 349102002393 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 349102002394 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102002395 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102002396 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102002397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102002398 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102002399 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102002400 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102002401 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102002402 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102002403 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102002404 AAA domain; Region: AAA_23; pfam13476 349102002405 Walker A/P-loop; other site 349102002406 ATP binding site [chemical binding]; other site 349102002407 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 349102002408 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349102002409 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 349102002410 Walker A motif; other site 349102002411 ATP binding site [chemical binding]; other site 349102002412 Walker B motif; other site 349102002413 arginine finger; other site 349102002414 Peptidase family M41; Region: Peptidase_M41; pfam01434 349102002415 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 349102002416 non-specific DNA binding site [nucleotide binding]; other site 349102002417 salt bridge; other site 349102002418 sequence-specific DNA binding site [nucleotide binding]; other site 349102002419 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349102002420 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 349102002421 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102002422 catalytic residue [active] 349102002423 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 349102002424 DNA photolyase; Region: DNA_photolyase; pfam00875 349102002425 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 349102002426 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 349102002427 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 349102002428 S-adenosylmethionine binding site [chemical binding]; other site 349102002429 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 349102002430 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 349102002431 dimer interface [polypeptide binding]; other site 349102002432 ADP-ribose binding site [chemical binding]; other site 349102002433 active site 349102002434 nudix motif; other site 349102002435 metal binding site [ion binding]; metal-binding site 349102002436 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349102002437 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 349102002438 dimer interface [polypeptide binding]; other site 349102002439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102002440 catalytic residue [active] 349102002441 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 349102002442 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 349102002443 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349102002444 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 349102002445 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 349102002446 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 349102002447 ligand binding site; other site 349102002448 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 349102002449 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 349102002450 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102002451 putative active site [active] 349102002452 putative metal binding site [ion binding]; other site 349102002453 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 349102002454 active site 349102002455 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349102002456 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 349102002457 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102002458 catalytic residue [active] 349102002459 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349102002460 active site 349102002461 catalytic residues [active] 349102002462 DNA binding site [nucleotide binding] 349102002463 Int/Topo IB signature motif; other site 349102002464 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102002465 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102002466 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102002467 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349102002468 active site 349102002469 catalytic residues [active] 349102002470 DNA binding site [nucleotide binding] 349102002471 Int/Topo IB signature motif; other site 349102002472 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 349102002473 DHH family; Region: DHH; pfam01368 349102002474 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 349102002475 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 349102002476 putative active site [active] 349102002477 homoserine dehydrogenase; Provisional; Region: PRK06349 349102002478 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 349102002479 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 349102002480 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 349102002481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349102002482 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102002483 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 349102002484 TadE-like protein; Region: TadE; pfam07811 349102002485 TadE-like protein; Region: TadE; pfam07811 349102002486 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 349102002487 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 349102002488 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 349102002489 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 349102002490 NAD(P) binding site [chemical binding]; other site 349102002491 DNA primase, catalytic core; Region: dnaG; TIGR01391 349102002492 CHC2 zinc finger; Region: zf-CHC2; pfam01807 349102002493 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 349102002494 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 349102002495 active site 349102002496 metal binding site [ion binding]; metal-binding site 349102002497 interdomain interaction site; other site 349102002498 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 349102002499 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 349102002500 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349102002501 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 349102002502 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102002503 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349102002504 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 349102002505 DNA binding residues [nucleotide binding] 349102002506 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 349102002507 ATP cone domain; Region: ATP-cone; pfam03477 349102002508 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 349102002509 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 349102002510 catalytic motif [active] 349102002511 Zn binding site [ion binding]; other site 349102002512 RibD C-terminal domain; Region: RibD_C; cl17279 349102002513 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 349102002514 dimer interface [polypeptide binding]; other site 349102002515 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349102002516 active site 349102002517 metal binding site [ion binding]; metal-binding site 349102002518 glutathione binding site [chemical binding]; other site 349102002519 thymidylate synthase; Reviewed; Region: thyA; PRK01827 349102002520 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 349102002521 dimerization interface [polypeptide binding]; other site 349102002522 active site 349102002523 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 349102002524 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 349102002525 folate binding site [chemical binding]; other site 349102002526 NADP+ binding site [chemical binding]; other site 349102002527 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 349102002528 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349102002529 ArsC family; Region: ArsC; pfam03960 349102002530 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 349102002531 DNA-binding site [nucleotide binding]; DNA binding site 349102002532 RNA-binding motif; other site 349102002533 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 349102002534 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 349102002535 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 349102002536 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 349102002537 active site 349102002538 dimer interface [polypeptide binding]; other site 349102002539 motif 1; other site 349102002540 motif 2; other site 349102002541 motif 3; other site 349102002542 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 349102002543 anticodon binding site; other site 349102002544 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349102002545 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 349102002546 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 349102002547 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 349102002548 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 349102002549 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 349102002550 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 349102002551 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 349102002552 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 349102002553 aminotransferase; Provisional; Region: PRK06105 349102002554 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 349102002555 inhibitor-cofactor binding pocket; inhibition site 349102002556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102002557 catalytic residue [active] 349102002558 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102002559 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102002560 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102002561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102002562 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102002563 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102002564 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 349102002565 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349102002566 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349102002567 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 349102002568 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 349102002569 catalytic triad [active] 349102002570 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349102002571 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349102002572 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 349102002573 dimer interface [polypeptide binding]; other site 349102002574 conserved gate region; other site 349102002575 putative PBP binding loops; other site 349102002576 ABC-ATPase subunit interface; other site 349102002577 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349102002578 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 349102002579 ABC-ATPase subunit interface; other site 349102002580 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349102002581 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102002582 substrate binding pocket [chemical binding]; other site 349102002583 membrane-bound complex binding site; other site 349102002584 hinge residues; other site 349102002585 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 349102002586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102002587 Walker A/P-loop; other site 349102002588 ATP binding site [chemical binding]; other site 349102002589 Q-loop/lid; other site 349102002590 ABC transporter signature motif; other site 349102002591 Walker B; other site 349102002592 D-loop; other site 349102002593 H-loop/switch region; other site 349102002594 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 349102002595 putative metal binding site [ion binding]; other site 349102002596 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 349102002597 CTP synthetase; Validated; Region: pyrG; PRK05380 349102002598 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 349102002599 Catalytic site [active] 349102002600 active site 349102002601 UTP binding site [chemical binding]; other site 349102002602 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 349102002603 active site 349102002604 putative oxyanion hole; other site 349102002605 catalytic triad [active] 349102002606 Preprotein translocase SecG subunit; Region: SecG; pfam03840 349102002607 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 349102002608 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 349102002609 GDP-binding site [chemical binding]; other site 349102002610 ACT binding site; other site 349102002611 IMP binding site; other site 349102002612 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 349102002613 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102002614 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102002615 Thiamine pyrophosphokinase; Region: TPK; cd07995 349102002616 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 349102002617 active site 349102002618 dimerization interface [polypeptide binding]; other site 349102002619 thiamine binding site [chemical binding]; other site 349102002620 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349102002621 EamA-like transporter family; Region: EamA; pfam00892 349102002622 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 349102002623 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 349102002624 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 349102002625 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 349102002626 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349102002627 active site 349102002628 dimer interface [polypeptide binding]; other site 349102002629 glutathione reductase; Validated; Region: PRK06116 349102002630 lycopene cyclase; Region: lycopene_cycl; TIGR01789 349102002631 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102002632 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102002633 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349102002634 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 349102002635 HflK protein; Region: hflK; TIGR01933 349102002636 HflC protein; Region: hflC; TIGR01932 349102002637 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 349102002638 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349102002639 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102002640 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 349102002641 protein binding site [polypeptide binding]; other site 349102002642 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 349102002643 protein binding site [polypeptide binding]; other site 349102002644 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102002645 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 349102002646 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 349102002647 TPP-binding site [chemical binding]; other site 349102002648 dimer interface [polypeptide binding]; other site 349102002649 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 349102002650 PYR/PP interface [polypeptide binding]; other site 349102002651 dimer interface [polypeptide binding]; other site 349102002652 TPP binding site [chemical binding]; other site 349102002653 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349102002654 Cell division protein ZapA; Region: ZapA; pfam05164 349102002655 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 349102002656 putative GSH binding site [chemical binding]; other site 349102002657 catalytic residues [active] 349102002658 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 349102002659 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 349102002660 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 349102002661 dimerization interface [polypeptide binding]; other site 349102002662 ATP binding site [chemical binding]; other site 349102002663 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 349102002664 dimerization interface [polypeptide binding]; other site 349102002665 ATP binding site [chemical binding]; other site 349102002666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102002667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102002668 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 349102002669 putative effector binding pocket; other site 349102002670 dimerization interface [polypeptide binding]; other site 349102002671 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 349102002672 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 349102002673 dimer interface [polypeptide binding]; other site 349102002674 PYR/PP interface [polypeptide binding]; other site 349102002675 TPP binding site [chemical binding]; other site 349102002676 substrate binding site [chemical binding]; other site 349102002677 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349102002678 TPP-binding site [chemical binding]; other site 349102002679 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 349102002680 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349102002681 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 349102002682 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 349102002683 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 349102002684 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 349102002685 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 349102002686 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 349102002687 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 349102002688 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 349102002689 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 349102002690 active site 349102002691 HIGH motif; other site 349102002692 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102002693 KMSK motif region; other site 349102002694 tRNA binding surface [nucleotide binding]; other site 349102002695 DALR anticodon binding domain; Region: DALR_1; smart00836 349102002696 anticodon binding site; other site 349102002697 Sporulation related domain; Region: SPOR; pfam05036 349102002698 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 349102002699 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 349102002700 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 349102002701 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 349102002702 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 349102002703 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 349102002704 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 349102002705 Predicted metalloprotease [General function prediction only]; Region: COG2321 349102002706 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 349102002707 Hint domain; Region: Hint_2; pfam13403 349102002708 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 349102002709 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102002710 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102002711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102002712 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102002713 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102002714 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102002715 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102002716 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102002717 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102002718 Transposase; Region: HTH_Tnp_1; pfam01527 349102002719 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 349102002720 metal-binding site 349102002721 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 349102002722 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 349102002723 TM-ABC transporter signature motif; other site 349102002724 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 349102002725 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102002726 TM-ABC transporter signature motif; other site 349102002727 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349102002728 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 349102002729 Walker A/P-loop; other site 349102002730 ATP binding site [chemical binding]; other site 349102002731 Q-loop/lid; other site 349102002732 ABC transporter signature motif; other site 349102002733 Walker B; other site 349102002734 D-loop; other site 349102002735 H-loop/switch region; other site 349102002736 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349102002737 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 349102002738 Walker A/P-loop; other site 349102002739 ATP binding site [chemical binding]; other site 349102002740 Q-loop/lid; other site 349102002741 ABC transporter signature motif; other site 349102002742 Walker B; other site 349102002743 D-loop; other site 349102002744 H-loop/switch region; other site 349102002745 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102002746 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 349102002747 putative ligand binding site [chemical binding]; other site 349102002748 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 349102002749 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 349102002750 active site 349102002751 HIGH motif; other site 349102002752 dimer interface [polypeptide binding]; other site 349102002753 KMSKS motif; other site 349102002754 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 349102002755 RNA binding surface [nucleotide binding]; other site 349102002756 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 349102002757 enolase; Provisional; Region: eno; PRK00077 349102002758 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 349102002759 dimer interface [polypeptide binding]; other site 349102002760 metal binding site [ion binding]; metal-binding site 349102002761 substrate binding pocket [chemical binding]; other site 349102002762 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349102002763 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349102002764 metal binding site 2 [ion binding]; metal-binding site 349102002765 putative DNA binding helix; other site 349102002766 metal binding site 1 [ion binding]; metal-binding site 349102002767 dimer interface [polypeptide binding]; other site 349102002768 structural Zn2+ binding site [ion binding]; other site 349102002769 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 349102002770 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 349102002771 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 349102002772 Transcriptional regulator; Region: Transcrip_reg; cl00361 349102002773 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 349102002774 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 349102002775 TSCPD domain; Region: TSCPD; pfam12637 349102002776 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349102002777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102002778 Transposase; Region: HTH_Tnp_1; pfam01527 349102002779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102002780 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102002781 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102002782 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102002783 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102002784 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102002785 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 349102002786 transposase; Validated; Region: PRK08181 349102002787 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 349102002788 Walker A motif; other site 349102002789 ATP binding site [chemical binding]; other site 349102002790 Walker B motif; other site 349102002791 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 349102002792 generic binding surface I; other site 349102002793 generic binding surface II; other site 349102002794 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 349102002795 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 349102002796 catalytic loop [active] 349102002797 iron binding site [ion binding]; other site 349102002798 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 349102002799 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349102002800 active site 349102002801 catalytic tetrad [active] 349102002802 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349102002803 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102002804 Walker A/P-loop; other site 349102002805 ATP binding site [chemical binding]; other site 349102002806 Q-loop/lid; other site 349102002807 ABC transporter signature motif; other site 349102002808 Walker B; other site 349102002809 D-loop; other site 349102002810 H-loop/switch region; other site 349102002811 TOBE domain; Region: TOBE_2; pfam08402 349102002812 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349102002813 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 349102002814 dimer interface [polypeptide binding]; other site 349102002815 conserved gate region; other site 349102002816 putative PBP binding loops; other site 349102002817 ABC-ATPase subunit interface; other site 349102002818 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 349102002819 dimer interface [polypeptide binding]; other site 349102002820 conserved gate region; other site 349102002821 putative PBP binding loops; other site 349102002822 ABC-ATPase subunit interface; other site 349102002823 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349102002824 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 349102002825 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 349102002826 putative ligand binding site [chemical binding]; other site 349102002827 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 349102002828 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349102002829 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349102002830 Walker A/P-loop; other site 349102002831 ATP binding site [chemical binding]; other site 349102002832 Q-loop/lid; other site 349102002833 ABC transporter signature motif; other site 349102002834 Walker B; other site 349102002835 D-loop; other site 349102002836 H-loop/switch region; other site 349102002837 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349102002838 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102002839 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349102002840 TM-ABC transporter signature motif; other site 349102002841 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102002842 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349102002843 TM-ABC transporter signature motif; other site 349102002844 cytosine deaminase; Validated; Region: PRK07572 349102002845 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 349102002846 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 349102002847 active site 349102002848 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349102002849 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 349102002850 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 349102002851 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 349102002852 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102002853 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 349102002854 putative active site [active] 349102002855 putative metal binding site [ion binding]; other site 349102002856 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349102002857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102002858 metal binding site [ion binding]; metal-binding site 349102002859 active site 349102002860 I-site; other site 349102002861 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 349102002862 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 349102002863 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 349102002864 DXD motif; other site 349102002865 PilZ domain; Region: PilZ; pfam07238 349102002866 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 349102002867 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 349102002868 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349102002869 GAF domain; Region: GAF; pfam01590 349102002870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102002871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102002872 metal binding site [ion binding]; metal-binding site 349102002873 active site 349102002874 I-site; other site 349102002875 NnrS protein; Region: NnrS; pfam05940 349102002876 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102002877 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 349102002878 ligand binding site [chemical binding]; other site 349102002879 flexible hinge region; other site 349102002880 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 349102002881 putative switch regulator; other site 349102002882 non-specific DNA interactions [nucleotide binding]; other site 349102002883 DNA binding site [nucleotide binding] 349102002884 sequence specific DNA binding site [nucleotide binding]; other site 349102002885 putative cAMP binding site [chemical binding]; other site 349102002886 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 349102002887 Cytochrome c; Region: Cytochrom_C; pfam00034 349102002888 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 349102002889 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 349102002890 Binuclear center (active site) [active] 349102002891 K-pathway; other site 349102002892 Putative proton exit pathway; other site 349102002893 Putative water exit pathway; other site 349102002894 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 349102002895 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 349102002896 Walker A motif; other site 349102002897 ATP binding site [chemical binding]; other site 349102002898 Walker B motif; other site 349102002899 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 349102002900 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 349102002901 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 349102002902 metal ion-dependent adhesion site (MIDAS); other site 349102002903 NnrU protein; Region: NnrU; pfam07298 349102002904 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 349102002905 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102002906 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 349102002907 DNA binding residues [nucleotide binding] 349102002908 dimerization interface [polypeptide binding]; other site 349102002909 PUCC protein; Region: PUCC; pfam03209 349102002910 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 349102002911 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 349102002912 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 349102002913 inhibitor-cofactor binding pocket; inhibition site 349102002914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102002915 catalytic residue [active] 349102002916 Phosphotransferase enzyme family; Region: APH; pfam01636 349102002917 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 349102002918 active site 349102002919 ATP binding site [chemical binding]; other site 349102002920 substrate binding site [chemical binding]; other site 349102002921 UreD urease accessory protein; Region: UreD; pfam01774 349102002922 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 349102002923 alpha-gamma subunit interface [polypeptide binding]; other site 349102002924 beta-gamma subunit interface [polypeptide binding]; other site 349102002925 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 349102002926 gamma-beta subunit interface [polypeptide binding]; other site 349102002927 alpha-beta subunit interface [polypeptide binding]; other site 349102002928 urease subunit alpha; Reviewed; Region: ureC; PRK13207 349102002929 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 349102002930 subunit interactions [polypeptide binding]; other site 349102002931 active site 349102002932 flap region; other site 349102002933 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 349102002934 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 349102002935 dimer interface [polypeptide binding]; other site 349102002936 catalytic residues [active] 349102002937 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 349102002938 UreF; Region: UreF; pfam01730 349102002939 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 349102002940 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102002941 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 349102002942 putative ligand binding site [chemical binding]; other site 349102002943 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 349102002944 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102002945 TM-ABC transporter signature motif; other site 349102002946 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 349102002947 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 349102002948 TM-ABC transporter signature motif; other site 349102002949 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 349102002950 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 349102002951 Walker A/P-loop; other site 349102002952 ATP binding site [chemical binding]; other site 349102002953 Q-loop/lid; other site 349102002954 ABC transporter signature motif; other site 349102002955 Walker B; other site 349102002956 D-loop; other site 349102002957 H-loop/switch region; other site 349102002958 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 349102002959 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 349102002960 Walker A/P-loop; other site 349102002961 ATP binding site [chemical binding]; other site 349102002962 Q-loop/lid; other site 349102002963 ABC transporter signature motif; other site 349102002964 Walker B; other site 349102002965 D-loop; other site 349102002966 H-loop/switch region; other site 349102002967 Cytochrome c; Region: Cytochrom_C; cl11414 349102002968 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 349102002969 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 349102002970 diiron binding motif [ion binding]; other site 349102002971 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 349102002972 Bacterial PH domain; Region: DUF304; cl01348 349102002973 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 349102002974 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cd00226 349102002975 subunit C interaction residues; other site 349102002976 subunit M interaction residues [polypeptide binding]; other site 349102002977 subunit L interaction residues [polypeptide binding]; other site 349102002978 putative proton transfer pathway, P1; other site 349102002979 putative proton transfer pathway, P2; other site 349102002980 PUCC protein; Region: PUCC; pfam03209 349102002981 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 349102002982 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 349102002983 S-adenosylmethionine binding site [chemical binding]; other site 349102002984 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 349102002985 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 349102002986 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 349102002987 P-loop; other site 349102002988 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 349102002989 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 349102002990 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 349102002991 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 349102002992 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 349102002993 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 349102002994 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 349102002995 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 349102002996 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 349102002997 B12 binding site [chemical binding]; other site 349102002998 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 349102002999 PAS domain; Region: PAS; smart00091 349102003000 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 349102003001 putative active site [active] 349102003002 heme pocket [chemical binding]; other site 349102003003 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102003004 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 349102003005 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 349102003006 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 349102003007 FeS/SAM binding site; other site 349102003008 V4R domain; Region: V4R; cl15268 349102003009 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 349102003010 UbiA prenyltransferase family; Region: UbiA; pfam01040 349102003011 PUCC protein; Region: PUCC; pfam03209 349102003012 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 349102003013 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 349102003014 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 349102003015 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 349102003016 active site 349102003017 metal binding site [ion binding]; metal-binding site 349102003018 nudix motif; other site 349102003019 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 349102003020 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 349102003021 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 349102003022 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 349102003023 metal ion-dependent adhesion site (MIDAS); other site 349102003024 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 349102003025 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 349102003026 Walker A motif; other site 349102003027 ATP binding site [chemical binding]; other site 349102003028 Walker B motif; other site 349102003029 arginine finger; other site 349102003030 phytoene desaturase; Region: crtI_fam; TIGR02734 349102003031 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102003032 RAB proteins geranylgeranyltransferase component A (RAB escort protein) [Posttranslational modification, protein turnover, chaperones]; Region: MRS6; cl17678 349102003033 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 349102003034 active site lid residues [active] 349102003035 substrate binding pocket [chemical binding]; other site 349102003036 catalytic residues [active] 349102003037 substrate-Mg2+ binding site; other site 349102003038 aspartate-rich region 1; other site 349102003039 aspartate-rich region 2; other site 349102003040 TspO/MBR family; Region: TspO_MBR; pfam03073 349102003041 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 349102003042 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 349102003043 catalytic loop [active] 349102003044 iron binding site [ion binding]; other site 349102003045 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 349102003046 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 349102003047 substrate binding pocket [chemical binding]; other site 349102003048 dimer interface [polypeptide binding]; other site 349102003049 inhibitor binding site; inhibition site 349102003050 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 349102003051 FAD binding site [chemical binding]; other site 349102003052 Virulence factor; Region: Virulence_fact; pfam13769 349102003053 exopolyphosphatase; Region: exo_poly_only; TIGR03706 349102003054 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 349102003055 FtsJ-like methyltransferase; Region: FtsJ; cl17430 349102003056 Peptidase M15; Region: Peptidase_M15_3; cl01194 349102003057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 349102003058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 349102003059 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102003060 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102003061 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 349102003062 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 349102003063 trimer interface [polypeptide binding]; other site 349102003064 active site 349102003065 UDP-GlcNAc binding site [chemical binding]; other site 349102003066 lipid binding site [chemical binding]; lipid-binding site 349102003067 acyl carrier protein; Provisional; Region: acpP; PRK00982 349102003068 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349102003069 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 349102003070 dimer interface [polypeptide binding]; other site 349102003071 active site 349102003072 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 349102003073 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 349102003074 amphipathic channel; other site 349102003075 Asn-Pro-Ala signature motifs; other site 349102003076 lipoyl synthase; Provisional; Region: PRK05481 349102003077 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 349102003078 FeS/SAM binding site; other site 349102003079 Cytochrome c; Region: Cytochrom_C; pfam00034 349102003080 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349102003081 Cytochrome c; Region: Cytochrom_C; pfam00034 349102003082 Cytochrome C' Region: Cytochrom_C_2; pfam01322 349102003083 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 349102003084 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102003085 active site 349102003086 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 349102003087 putative coenzyme Q binding site [chemical binding]; other site 349102003088 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349102003089 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 349102003090 dimerization interface [polypeptide binding]; other site 349102003091 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102003092 dimer interface [polypeptide binding]; other site 349102003093 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 349102003094 putative CheW interface [polypeptide binding]; other site 349102003095 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 349102003096 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349102003097 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 349102003098 FeS/SAM binding site; other site 349102003099 hypothetical protein; Provisional; Region: PRK07550 349102003100 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 349102003101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102003102 homodimer interface [polypeptide binding]; other site 349102003103 catalytic residue [active] 349102003104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102003105 active site 349102003106 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 349102003107 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 349102003108 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349102003109 NAD binding site [chemical binding]; other site 349102003110 homotetramer interface [polypeptide binding]; other site 349102003111 homodimer interface [polypeptide binding]; other site 349102003112 substrate binding site [chemical binding]; other site 349102003113 active site 349102003114 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 349102003115 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 349102003116 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 349102003117 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 349102003118 DNA-binding site [nucleotide binding]; DNA binding site 349102003119 RNA-binding motif; other site 349102003120 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 349102003121 DNA-binding site [nucleotide binding]; DNA binding site 349102003122 RNA-binding motif; other site 349102003123 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 349102003124 cobalamin synthase; Reviewed; Region: cobS; PRK00235 349102003125 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 349102003126 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 349102003127 putative dimer interface [polypeptide binding]; other site 349102003128 active site pocket [active] 349102003129 putative cataytic base [active] 349102003130 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 349102003131 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 349102003132 TrkA-N domain; Region: TrkA_N; pfam02254 349102003133 Uncharacterized conserved protein [Function unknown]; Region: COG2968 349102003134 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 349102003135 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 349102003136 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 349102003137 homodimer interface [polypeptide binding]; other site 349102003138 substrate-cofactor binding pocket; other site 349102003139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102003140 catalytic residue [active] 349102003141 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 349102003142 classical (c) SDRs; Region: SDR_c; cd05233 349102003143 NAD(P) binding site [chemical binding]; other site 349102003144 active site 349102003145 amidophosphoribosyltransferase; Provisional; Region: PRK09123 349102003146 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 349102003147 active site 349102003148 tetramer interface [polypeptide binding]; other site 349102003149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102003150 active site 349102003151 DNA repair protein RadA; Provisional; Region: PRK11823 349102003152 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 349102003153 Walker A motif/ATP binding site; other site 349102003154 ATP binding site [chemical binding]; other site 349102003155 Walker B motif; other site 349102003156 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 349102003157 Paraquat-inducible protein A; Region: PqiA; pfam04403 349102003158 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 349102003159 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 349102003160 Walker A/P-loop; other site 349102003161 ATP binding site [chemical binding]; other site 349102003162 Q-loop/lid; other site 349102003163 ABC transporter signature motif; other site 349102003164 Walker B; other site 349102003165 D-loop; other site 349102003166 H-loop/switch region; other site 349102003167 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 349102003168 Permease; Region: Permease; pfam02405 349102003169 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 349102003170 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 349102003171 active site 349102003172 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349102003173 dimer interface [polypeptide binding]; other site 349102003174 substrate binding site [chemical binding]; other site 349102003175 catalytic residues [active] 349102003176 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 349102003177 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 349102003178 NAD(P) binding site [chemical binding]; other site 349102003179 homotetramer interface [polypeptide binding]; other site 349102003180 homodimer interface [polypeptide binding]; other site 349102003181 active site 349102003182 acyl carrier protein; Provisional; Region: acpP; PRK00982 349102003183 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 349102003184 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 349102003185 dimer interface [polypeptide binding]; other site 349102003186 active site 349102003187 YceG-like family; Region: YceG; pfam02618 349102003188 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 349102003189 dimerization interface [polypeptide binding]; other site 349102003190 Uncharacterized conserved protein [Function unknown]; Region: COG5323 349102003191 Terminase-like family; Region: Terminase_6; pfam03237 349102003192 Phage-related protein [Function unknown]; Region: COG4695 349102003193 Phage portal protein; Region: Phage_portal; pfam04860 349102003194 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 349102003195 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 349102003196 Phage capsid family; Region: Phage_capsid; pfam05065 349102003197 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 349102003198 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 349102003199 oligomerization interface [polypeptide binding]; other site 349102003200 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 349102003201 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349102003202 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 349102003203 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 349102003204 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 349102003205 Phage-related minor tail protein [Function unknown]; Region: COG5281 349102003206 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 349102003207 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 349102003208 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 349102003209 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 349102003210 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 349102003211 NlpC/P60 family; Region: NLPC_P60; cl17555 349102003212 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 349102003213 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349102003214 serine acetyltransferase; Provisional; Region: cysE; PRK11132 349102003215 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 349102003216 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 349102003217 trimer interface [polypeptide binding]; other site 349102003218 active site 349102003219 substrate binding site [chemical binding]; other site 349102003220 CoA binding site [chemical binding]; other site 349102003221 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 349102003222 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 349102003223 E3 interaction surface; other site 349102003224 lipoyl attachment site [posttranslational modification]; other site 349102003225 e3 binding domain; Region: E3_binding; pfam02817 349102003226 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349102003227 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 349102003228 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 349102003229 E3 interaction surface; other site 349102003230 lipoyl attachment site [posttranslational modification]; other site 349102003231 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 349102003232 alpha subunit interface [polypeptide binding]; other site 349102003233 TPP binding site [chemical binding]; other site 349102003234 heterodimer interface [polypeptide binding]; other site 349102003235 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349102003236 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 349102003237 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 349102003238 tetramer interface [polypeptide binding]; other site 349102003239 TPP-binding site [chemical binding]; other site 349102003240 heterodimer interface [polypeptide binding]; other site 349102003241 phosphorylation loop region [posttranslational modification] 349102003242 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 349102003243 Septum formation initiator; Region: DivIC; pfam04977 349102003244 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 349102003245 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 349102003246 putative active site; other site 349102003247 catalytic residue [active] 349102003248 Phosphoglycerate kinase; Region: PGK; pfam00162 349102003249 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 349102003250 substrate binding site [chemical binding]; other site 349102003251 hinge regions; other site 349102003252 ADP binding site [chemical binding]; other site 349102003253 catalytic site [active] 349102003254 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 349102003255 active site 349102003256 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 349102003257 active site 349102003258 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349102003259 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 349102003260 conserved cys residue [active] 349102003261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349102003262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349102003263 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 349102003264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 349102003265 hypothetical protein; Provisional; Region: PRK11820 349102003266 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 349102003267 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 349102003268 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 349102003269 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 349102003270 catalytic site [active] 349102003271 G-X2-G-X-G-K; other site 349102003272 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 349102003273 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 349102003274 trimer interface [polypeptide binding]; other site 349102003275 putative metal binding site [ion binding]; other site 349102003276 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349102003277 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 349102003278 dimer interface [polypeptide binding]; other site 349102003279 phosphorylation site [posttranslational modification] 349102003280 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 349102003281 ATP binding site [chemical binding]; other site 349102003282 Mg2+ binding site [ion binding]; other site 349102003283 G-X-G motif; other site 349102003284 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 349102003285 active site 349102003286 tetramer interface [polypeptide binding]; other site 349102003287 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 349102003288 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349102003289 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 349102003290 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 349102003291 homodimer interface [polypeptide binding]; other site 349102003292 metal binding site [ion binding]; metal-binding site 349102003293 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 349102003294 homodimer interface [polypeptide binding]; other site 349102003295 active site 349102003296 putative chemical substrate binding site [chemical binding]; other site 349102003297 metal binding site [ion binding]; metal-binding site 349102003298 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349102003299 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 349102003300 metal binding site [ion binding]; metal-binding site 349102003301 putative dimer interface [polypeptide binding]; other site 349102003302 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 349102003303 agmatinase; Region: agmatinase; TIGR01230 349102003304 oligomer interface [polypeptide binding]; other site 349102003305 putative active site [active] 349102003306 Mn binding site [ion binding]; other site 349102003307 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 349102003308 peptide chain release factor 1; Validated; Region: prfA; PRK00591 349102003309 PCRF domain; Region: PCRF; pfam03462 349102003310 RF-1 domain; Region: RF-1; pfam00472 349102003311 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 349102003312 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 349102003313 S-adenosylmethionine binding site [chemical binding]; other site 349102003314 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 349102003315 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 349102003316 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 349102003317 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 349102003318 SurA N-terminal domain; Region: SurA_N; pfam09312 349102003319 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 349102003320 Organic solvent tolerance protein; Region: OstA_C; pfam04453 349102003321 Predicted permeases [General function prediction only]; Region: COG0795 349102003322 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349102003323 Predicted permeases [General function prediction only]; Region: COG0795 349102003324 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349102003325 multifunctional aminopeptidase A; Provisional; Region: PRK00913 349102003326 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 349102003327 interface (dimer of trimers) [polypeptide binding]; other site 349102003328 Substrate-binding/catalytic site; other site 349102003329 Zn-binding sites [ion binding]; other site 349102003330 DNA polymerase III subunit chi; Validated; Region: PRK05728 349102003331 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 349102003332 catalytic motif [active] 349102003333 Catalytic residue [active] 349102003334 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 349102003335 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 349102003336 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102003337 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102003338 ABC transporter; Region: ABC_tran_2; pfam12848 349102003339 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102003340 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 349102003341 active site 349102003342 multimer interface [polypeptide binding]; other site 349102003343 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 349102003344 metal-binding site [ion binding] 349102003345 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349102003346 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 349102003347 metal-binding site [ion binding] 349102003348 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349102003349 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349102003350 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 349102003351 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 349102003352 DNA binding residues [nucleotide binding] 349102003353 dimer interface [polypeptide binding]; other site 349102003354 copper binding site [ion binding]; other site 349102003355 Transcriptional regulator; Region: Rrf2; cl17282 349102003356 Predicted transcriptional regulator [Transcription]; Region: COG1959 349102003357 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 349102003358 homodimer interface [polypeptide binding]; other site 349102003359 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 349102003360 active site pocket [active] 349102003361 glycogen branching enzyme; Provisional; Region: PRK05402 349102003362 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 349102003363 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 349102003364 active site 349102003365 catalytic site [active] 349102003366 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 349102003367 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 349102003368 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 349102003369 ligand binding site; other site 349102003370 oligomer interface; other site 349102003371 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 349102003372 dimer interface [polypeptide binding]; other site 349102003373 N-terminal domain interface [polypeptide binding]; other site 349102003374 sulfate 1 binding site; other site 349102003375 glycogen synthase; Provisional; Region: glgA; PRK00654 349102003376 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 349102003377 ADP-binding pocket [chemical binding]; other site 349102003378 homodimer interface [polypeptide binding]; other site 349102003379 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 349102003380 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 349102003381 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 349102003382 active site 349102003383 catalytic site [active] 349102003384 phosphoglucomutase; Region: PLN02307 349102003385 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 349102003386 substrate binding site [chemical binding]; other site 349102003387 dimer interface [polypeptide binding]; other site 349102003388 active site 349102003389 metal binding site [ion binding]; metal-binding site 349102003390 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102003391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 349102003392 active site 349102003393 phosphorylation site [posttranslational modification] 349102003394 intermolecular recognition site; other site 349102003395 dimerization interface [polypeptide binding]; other site 349102003396 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 349102003397 DNA binding residues [nucleotide binding] 349102003398 dimerization interface [polypeptide binding]; other site 349102003399 Uncharacterized conserved protein [Function unknown]; Region: COG3287 349102003400 FIST N domain; Region: FIST; pfam08495 349102003401 FIST C domain; Region: FIST_C; pfam10442 349102003402 PAS fold; Region: PAS_7; pfam12860 349102003403 PAS fold; Region: PAS_7; pfam12860 349102003404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102003405 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 349102003406 dimer interface [polypeptide binding]; other site 349102003407 phosphorylation site [posttranslational modification] 349102003408 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 349102003409 ATP binding site [chemical binding]; other site 349102003410 Mg2+ binding site [ion binding]; other site 349102003411 G-X-G motif; other site 349102003412 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 349102003413 Response regulator receiver domain; Region: Response_reg; pfam00072 349102003414 active site 349102003415 phosphorylation site [posttranslational modification] 349102003416 intermolecular recognition site; other site 349102003417 dimerization interface [polypeptide binding]; other site 349102003418 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 349102003419 putative hydrophobic ligand binding site [chemical binding]; other site 349102003420 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349102003421 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349102003422 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349102003423 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349102003424 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 349102003425 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349102003426 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 349102003427 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 349102003428 glucokinase, proteobacterial type; Region: glk; TIGR00749 349102003429 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349102003430 nucleotide binding site [chemical binding]; other site 349102003431 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 349102003432 beta-galactosidase; Region: BGL; TIGR03356 349102003433 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349102003434 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349102003435 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 349102003436 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 349102003437 putative PBP binding loops; other site 349102003438 dimer interface [polypeptide binding]; other site 349102003439 ABC-ATPase subunit interface; other site 349102003440 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102003441 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 349102003442 dimer interface [polypeptide binding]; other site 349102003443 ABC-ATPase subunit interface; other site 349102003444 putative PBP binding loops; other site 349102003445 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349102003446 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 349102003447 Walker A/P-loop; other site 349102003448 ATP binding site [chemical binding]; other site 349102003449 Q-loop/lid; other site 349102003450 ABC transporter signature motif; other site 349102003451 Walker B; other site 349102003452 D-loop; other site 349102003453 H-loop/switch region; other site 349102003454 TOBE domain; Region: TOBE_2; pfam08402 349102003455 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 349102003456 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 349102003457 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 349102003458 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 349102003459 active site 349102003460 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102003461 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102003462 multidrug efflux protein; Reviewed; Region: PRK09579 349102003463 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 349102003464 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 349102003465 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349102003466 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 349102003467 FMN binding site [chemical binding]; other site 349102003468 active site 349102003469 substrate binding site [chemical binding]; other site 349102003470 catalytic residue [active] 349102003471 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 349102003472 Found in ATP-dependent protease La (LON); Region: LON; smart00464 349102003473 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 349102003474 Walker A motif; other site 349102003475 ATP binding site [chemical binding]; other site 349102003476 Walker B motif; other site 349102003477 arginine finger; other site 349102003478 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 349102003479 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 349102003480 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 349102003481 nucleotide binding pocket [chemical binding]; other site 349102003482 K-X-D-G motif; other site 349102003483 catalytic site [active] 349102003484 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 349102003485 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 349102003486 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 349102003487 Dimer interface [polypeptide binding]; other site 349102003488 BRCT sequence motif; other site 349102003489 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 349102003490 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 349102003491 generic binding surface II; other site 349102003492 ssDNA binding site; other site 349102003493 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 349102003494 ATP binding site [chemical binding]; other site 349102003495 putative Mg++ binding site [ion binding]; other site 349102003496 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 349102003497 nucleotide binding region [chemical binding]; other site 349102003498 ATP-binding site [chemical binding]; other site 349102003499 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 349102003500 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349102003501 trimerization site [polypeptide binding]; other site 349102003502 active site 349102003503 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 349102003504 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 349102003505 active site 349102003506 HIGH motif; other site 349102003507 nucleotide binding site [chemical binding]; other site 349102003508 active site 349102003509 KMSKS motif; other site 349102003510 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 349102003511 Glucose inhibited division protein A; Region: GIDA; pfam01134 349102003512 DNA gyrase subunit A; Validated; Region: PRK05560 349102003513 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 349102003514 CAP-like domain; other site 349102003515 active site 349102003516 primary dimer interface [polypeptide binding]; other site 349102003517 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349102003518 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349102003519 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349102003520 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349102003521 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349102003522 Usg-like family; Region: Usg; pfam06233 349102003523 agmatinase; Region: agmatinase; TIGR01230 349102003524 Arginase family; Region: Arginase; cd09989 349102003525 active site 349102003526 Mn binding site [ion binding]; other site 349102003527 oligomer interface [polypeptide binding]; other site 349102003528 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 349102003529 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 349102003530 enoyl-CoA hydratase; Provisional; Region: PRK08140 349102003531 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 349102003532 substrate binding site [chemical binding]; other site 349102003533 oxyanion hole (OAH) forming residues; other site 349102003534 trimer interface [polypeptide binding]; other site 349102003535 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 349102003536 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 349102003537 putative valine binding site [chemical binding]; other site 349102003538 dimer interface [polypeptide binding]; other site 349102003539 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 349102003540 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 349102003541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349102003542 PYR/PP interface [polypeptide binding]; other site 349102003543 dimer interface [polypeptide binding]; other site 349102003544 TPP binding site [chemical binding]; other site 349102003545 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349102003546 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 349102003547 TPP-binding site [chemical binding]; other site 349102003548 dimer interface [polypeptide binding]; other site 349102003549 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 349102003550 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349102003551 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349102003552 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 349102003553 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 349102003554 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 349102003555 RDD family; Region: RDD; pfam06271 349102003556 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 349102003557 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 349102003558 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349102003559 metal binding triad; other site 349102003560 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349102003561 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349102003562 metal binding triad; other site 349102003563 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 349102003564 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 349102003565 active site 349102003566 intersubunit interface [polypeptide binding]; other site 349102003567 catalytic residue [active] 349102003568 phosphogluconate dehydratase; Validated; Region: PRK09054 349102003569 6-phosphogluconate dehydratase; Region: edd; TIGR01196 349102003570 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 349102003571 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 349102003572 putative RNA binding site [nucleotide binding]; other site 349102003573 PIN domain; Region: PIN_3; pfam13470 349102003574 Peptidase family M48; Region: Peptidase_M48; cl12018 349102003575 Cytochrome c; Region: Cytochrom_C; cl11414 349102003576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 349102003577 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 349102003578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349102003579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102003580 Coenzyme A binding pocket [chemical binding]; other site 349102003581 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349102003582 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 349102003583 Walker A motif; other site 349102003584 ATP binding site [chemical binding]; other site 349102003585 Walker B motif; other site 349102003586 arginine finger; other site 349102003587 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 349102003588 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349102003589 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349102003590 CoenzymeA binding site [chemical binding]; other site 349102003591 subunit interaction site [polypeptide binding]; other site 349102003592 PHB binding site; other site 349102003593 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 349102003594 putative catalytic site [active] 349102003595 putative phosphate binding site [ion binding]; other site 349102003596 active site 349102003597 metal binding site A [ion binding]; metal-binding site 349102003598 DNA binding site [nucleotide binding] 349102003599 putative AP binding site [nucleotide binding]; other site 349102003600 putative metal binding site B [ion binding]; other site 349102003601 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 349102003602 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 349102003603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349102003604 Zn2+ binding site [ion binding]; other site 349102003605 Mg2+ binding site [ion binding]; other site 349102003606 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 349102003607 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 349102003608 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 349102003609 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349102003610 putative active site [active] 349102003611 metal binding site [ion binding]; metal-binding site 349102003612 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 349102003613 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 349102003614 N- and C-terminal domain interface [polypeptide binding]; other site 349102003615 active site 349102003616 MgATP binding site [chemical binding]; other site 349102003617 catalytic site [active] 349102003618 metal binding site [ion binding]; metal-binding site 349102003619 glycerol binding site [chemical binding]; other site 349102003620 homotetramer interface [polypeptide binding]; other site 349102003621 homodimer interface [polypeptide binding]; other site 349102003622 FBP binding site [chemical binding]; other site 349102003623 protein IIAGlc interface [polypeptide binding]; other site 349102003624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349102003625 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 349102003626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102003627 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 349102003628 dimer interface [polypeptide binding]; other site 349102003629 conserved gate region; other site 349102003630 putative PBP binding loops; other site 349102003631 ABC-ATPase subunit interface; other site 349102003632 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 349102003633 dimer interface [polypeptide binding]; other site 349102003634 conserved gate region; other site 349102003635 putative PBP binding loops; other site 349102003636 ABC-ATPase subunit interface; other site 349102003637 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 349102003638 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 349102003639 Walker A/P-loop; other site 349102003640 ATP binding site [chemical binding]; other site 349102003641 Q-loop/lid; other site 349102003642 ABC transporter signature motif; other site 349102003643 Walker B; other site 349102003644 D-loop; other site 349102003645 H-loop/switch region; other site 349102003646 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 349102003647 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 349102003648 Walker A/P-loop; other site 349102003649 ATP binding site [chemical binding]; other site 349102003650 Q-loop/lid; other site 349102003651 ABC transporter signature motif; other site 349102003652 Walker B; other site 349102003653 D-loop; other site 349102003654 H-loop/switch region; other site 349102003655 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 349102003656 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 349102003657 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 349102003658 Trp docking motif [polypeptide binding]; other site 349102003659 putative active site [active] 349102003660 PRC-barrel domain; Region: PRC; pfam05239 349102003661 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 349102003662 BON domain; Region: BON; pfam04972 349102003663 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349102003664 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 349102003665 active site 349102003666 phosphorylation site [posttranslational modification] 349102003667 intermolecular recognition site; other site 349102003668 dimerization interface [polypeptide binding]; other site 349102003669 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 349102003670 MgtC family; Region: MgtC; pfam02308 349102003671 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 349102003672 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 349102003673 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 349102003674 active site 349102003675 DNA binding site [nucleotide binding] 349102003676 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 349102003677 DNA binding site [nucleotide binding] 349102003678 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 349102003679 nucleotide binding site [chemical binding]; other site 349102003680 RNA polymerase sigma factor; Provisional; Region: PRK11924 349102003681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102003682 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 349102003683 DNA binding residues [nucleotide binding] 349102003684 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 349102003685 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349102003686 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 349102003687 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 349102003688 active site 349102003689 DNA binding site [nucleotide binding] 349102003690 Int/Topo IB signature motif; other site 349102003691 Protein of unknown function, DUF484; Region: DUF484; cl17449 349102003692 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 349102003693 active site 349102003694 intersubunit interactions; other site 349102003695 catalytic residue [active] 349102003696 primosome assembly protein PriA; Validated; Region: PRK05580 349102003697 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 349102003698 ATP binding site [chemical binding]; other site 349102003699 putative Mg++ binding site [ion binding]; other site 349102003700 methionine sulfoxide reductase A; Provisional; Region: PRK00058 349102003701 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 349102003702 Methyltransferase domain; Region: Methyltransf_18; pfam12847 349102003703 S-adenosylmethionine binding site [chemical binding]; other site 349102003704 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 349102003705 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 349102003706 active site 349102003707 putative DNA-binding cleft [nucleotide binding]; other site 349102003708 dimer interface [polypeptide binding]; other site 349102003709 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 349102003710 RuvA N terminal domain; Region: RuvA_N; pfam01330 349102003711 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 349102003712 heat shock protein HtpX; Provisional; Region: PRK01345 349102003713 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 349102003714 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 349102003715 Walker A motif; other site 349102003716 ATP binding site [chemical binding]; other site 349102003717 Walker B motif; other site 349102003718 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 349102003719 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 349102003720 thymidylate kinase; Validated; Region: tmk; PRK00698 349102003721 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 349102003722 TMP-binding site; other site 349102003723 ATP-binding site [chemical binding]; other site 349102003724 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349102003725 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349102003726 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 349102003727 Sporulation related domain; Region: SPOR; pfam05036 349102003728 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 349102003729 active site 349102003730 catalytic residue [active] 349102003731 Nif-specific regulatory protein; Region: nifA; TIGR01817 349102003732 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 349102003733 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 349102003734 Walker A motif; other site 349102003735 ATP binding site [chemical binding]; other site 349102003736 Walker B motif; other site 349102003737 arginine finger; other site 349102003738 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102003739 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 349102003740 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 349102003741 FeS/SAM binding site; other site 349102003742 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 349102003743 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 349102003744 NifZ domain; Region: NifZ; pfam04319 349102003745 NifT/FixU protein; Region: NifT; pfam06988 349102003746 SIR2-like domain; Region: SIR2_2; pfam13289 349102003747 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 349102003748 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 349102003749 Nucleotide-binding sites [chemical binding]; other site 349102003750 Walker A motif; other site 349102003751 Switch I region of nucleotide binding site; other site 349102003752 Fe4S4 binding sites [ion binding]; other site 349102003753 Switch II region of nucleotide binding site; other site 349102003754 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 349102003755 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 349102003756 MoFe protein alpha/beta subunit interactions; other site 349102003757 Alpha subunit P cluster binding residues; other site 349102003758 FeMoco binding residues [chemical binding]; other site 349102003759 MoFe protein alpha subunit/Fe protein contacts; other site 349102003760 MoFe protein dimer/ dimer interactions; other site 349102003761 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 349102003762 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 349102003763 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 349102003764 MoFe protein beta/alpha subunit interactions; other site 349102003765 Beta subunit P cluster binding residues; other site 349102003766 MoFe protein beta subunit/Fe protein contacts; other site 349102003767 MoFe protein dimer/ dimer interactions; other site 349102003768 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 349102003769 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 349102003770 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 349102003771 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 349102003772 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 349102003773 probable nitrogen fixation protein; Region: TIGR02935 349102003774 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 349102003775 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 349102003776 NifQ; Region: NifQ; pfam04891 349102003777 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 349102003778 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 349102003779 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349102003780 trimerization site [polypeptide binding]; other site 349102003781 active site 349102003782 NifU-like domain; Region: NifU; pfam01106 349102003783 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 349102003784 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 349102003785 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102003786 catalytic residue [active] 349102003787 homocitrate synthase; Region: LysS_fung_arch; TIGR02146 349102003788 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 349102003789 active site 349102003790 catalytic residues [active] 349102003791 metal binding site [ion binding]; metal-binding site 349102003792 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 349102003793 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349102003794 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 349102003795 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349102003796 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349102003797 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 349102003798 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 349102003799 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 349102003800 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 349102003801 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 349102003802 DNA binding site [nucleotide binding] 349102003803 heterodimer interface [polypeptide binding]; other site 349102003804 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102003805 Predicted transcriptional regulator [Transcription]; Region: COG2932 349102003806 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 349102003807 Catalytic site [active] 349102003808 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 349102003809 IHF dimer interface [polypeptide binding]; other site 349102003810 IHF - DNA interface [nucleotide binding]; other site 349102003811 ParB-like nuclease domain; Region: ParB; smart00470 349102003812 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 349102003813 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 349102003814 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 349102003815 AAA domain; Region: AAA_22; pfam13401 349102003816 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 349102003817 DnaA box-binding interface [nucleotide binding]; other site 349102003818 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 349102003819 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 349102003820 MT-A70; Region: MT-A70; cl01947 349102003821 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 349102003822 amidase catalytic site [active] 349102003823 Zn binding residues [ion binding]; other site 349102003824 substrate binding site [chemical binding]; other site 349102003825 Bacterial SH3 domain homologues; Region: SH3b; smart00287 349102003826 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 349102003827 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 349102003828 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 349102003829 Terminase-like family; Region: Terminase_6; pfam03237 349102003830 Protein of unknown function (DUF935); Region: DUF935; pfam06074 349102003831 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 349102003832 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 349102003833 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 349102003834 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 349102003835 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 349102003836 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 349102003837 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 349102003838 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 349102003839 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349102003840 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 349102003841 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 349102003842 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 349102003843 putative active site [active] 349102003844 putative NTP binding site [chemical binding]; other site 349102003845 putative nucleic acid binding site [nucleotide binding]; other site 349102003846 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 349102003847 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 349102003848 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 349102003849 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 349102003850 dimer interface [polypeptide binding]; other site 349102003851 putative tRNA-binding site [nucleotide binding]; other site 349102003852 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349102003853 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 349102003854 dimerization interface [polypeptide binding]; other site 349102003855 ligand binding site [chemical binding]; other site 349102003856 NADP binding site [chemical binding]; other site 349102003857 catalytic site [active] 349102003858 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102003859 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102003860 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349102003861 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102003862 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 349102003863 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102003864 NAD binding site [chemical binding]; other site 349102003865 putative substrate binding site 2 [chemical binding]; other site 349102003866 putative substrate binding site 1 [chemical binding]; other site 349102003867 active site 349102003868 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 349102003869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102003870 NAD(P) binding site [chemical binding]; other site 349102003871 active site 349102003872 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 349102003873 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 349102003874 active site 349102003875 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 349102003876 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349102003877 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349102003878 active site 349102003879 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 349102003880 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 349102003881 substrate binding site [chemical binding]; other site 349102003882 oxyanion hole (OAH) forming residues; other site 349102003883 trimer interface [polypeptide binding]; other site 349102003884 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 349102003885 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349102003886 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 349102003887 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 349102003888 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 349102003889 metal ion-dependent adhesion site (MIDAS); other site 349102003890 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 349102003891 Walker A motif; other site 349102003892 ATP binding site [chemical binding]; other site 349102003893 Walker B motif; other site 349102003894 CHASE3 domain; Region: CHASE3; pfam05227 349102003895 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102003896 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349102003897 dimer interface [polypeptide binding]; other site 349102003898 phosphorylation site [posttranslational modification] 349102003899 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 349102003900 ATP binding site [chemical binding]; other site 349102003901 Mg2+ binding site [ion binding]; other site 349102003902 G-X-G motif; other site 349102003903 Response regulator receiver domain; Region: Response_reg; pfam00072 349102003904 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 349102003905 active site 349102003906 phosphorylation site [posttranslational modification] 349102003907 intermolecular recognition site; other site 349102003908 dimerization interface [polypeptide binding]; other site 349102003909 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349102003910 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 349102003911 active site 349102003912 phosphorylation site [posttranslational modification] 349102003913 intermolecular recognition site; other site 349102003914 dimerization interface [polypeptide binding]; other site 349102003915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102003916 Histidine kinase; Region: HisKA_2; pfam07568 349102003917 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 349102003918 ATP binding site [chemical binding]; other site 349102003919 Mg2+ binding site [ion binding]; other site 349102003920 G-X-G motif; other site 349102003921 glutamine synthetase; Provisional; Region: glnA; PRK09469 349102003922 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349102003923 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349102003924 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 349102003925 Nitrogen regulatory protein P-II; Region: P-II; smart00938 349102003926 Hint domain; Region: Hint_2; pfam13403 349102003927 trigger factor; Provisional; Region: tig; PRK01490 349102003928 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 349102003929 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 349102003930 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 349102003931 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 349102003932 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 349102003933 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 349102003934 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 349102003935 hypothetical protein; Provisional; Region: PRK14709 349102003936 D5 N terminal like; Region: D5_N; smart00885 349102003937 Homeodomain-like domain; Region: HTH_23; cl17451 349102003938 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349102003939 Phage portal protein; Region: Phage_portal; pfam04860 349102003940 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 349102003941 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 349102003942 Phage capsid family; Region: Phage_capsid; pfam05065 349102003943 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 349102003944 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 349102003945 active site 349102003946 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 349102003947 oligomerization interface [polypeptide binding]; other site 349102003948 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 349102003949 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349102003950 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 349102003951 Phage terminase, small subunit; Region: Terminase_4; pfam05119 349102003952 Phage Terminase; Region: Terminase_1; pfam03354 349102003953 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 349102003954 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349102003955 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 349102003956 non-specific DNA binding site [nucleotide binding]; other site 349102003957 salt bridge; other site 349102003958 sequence-specific DNA binding site [nucleotide binding]; other site 349102003959 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 349102003960 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349102003961 active site 349102003962 catalytic residues [active] 349102003963 DNA binding site [nucleotide binding] 349102003964 Int/Topo IB signature motif; other site 349102003965 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 349102003966 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 349102003967 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 349102003968 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349102003969 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102003970 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349102003971 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 349102003972 dimer interface [polypeptide binding]; other site 349102003973 conserved gate region; other site 349102003974 putative PBP binding loops; other site 349102003975 ABC-ATPase subunit interface; other site 349102003976 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 349102003977 dimer interface [polypeptide binding]; other site 349102003978 conserved gate region; other site 349102003979 putative PBP binding loops; other site 349102003980 ABC-ATPase subunit interface; other site 349102003981 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349102003982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102003983 Walker A/P-loop; other site 349102003984 ATP binding site [chemical binding]; other site 349102003985 Q-loop/lid; other site 349102003986 ABC transporter signature motif; other site 349102003987 Walker B; other site 349102003988 D-loop; other site 349102003989 H-loop/switch region; other site 349102003990 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 349102003991 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 349102003992 N-terminal plug; other site 349102003993 ligand-binding site [chemical binding]; other site 349102003994 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349102003995 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 349102003996 intersubunit interface [polypeptide binding]; other site 349102003997 FecCD transport family; Region: FecCD; pfam01032 349102003998 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349102003999 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 349102004000 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 349102004001 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 349102004002 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 349102004003 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 349102004004 Protein of unknown function (DUF808); Region: DUF808; cl01002 349102004005 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 349102004006 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 349102004007 tetrameric interface [polypeptide binding]; other site 349102004008 NAD binding site [chemical binding]; other site 349102004009 catalytic residues [active] 349102004010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102004011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102004012 LysR substrate binding domain; Region: LysR_substrate; pfam03466 349102004013 dimerization interface [polypeptide binding]; other site 349102004014 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 349102004015 FOG: CBS domain [General function prediction only]; Region: COG0517 349102004016 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 349102004017 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 349102004018 active site 349102004019 (T/H)XGH motif; other site 349102004020 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349102004021 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 349102004022 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102004023 ligand binding site [chemical binding]; other site 349102004024 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 349102004025 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 349102004026 active site 349102004027 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349102004028 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 349102004029 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 349102004030 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 349102004031 YceI-like domain; Region: YceI; pfam04264 349102004032 Uncharacterized conserved protein [Function unknown]; Region: COG2353 349102004033 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349102004034 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349102004035 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 349102004036 arsenical-resistance protein; Region: acr3; TIGR00832 349102004037 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 349102004038 Coenzyme A binding pocket [chemical binding]; other site 349102004039 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 349102004040 dimerization interface [polypeptide binding]; other site 349102004041 putative DNA binding site [nucleotide binding]; other site 349102004042 putative Zn2+ binding site [ion binding]; other site 349102004043 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 349102004044 dimerization interface [polypeptide binding]; other site 349102004045 putative DNA binding site [nucleotide binding]; other site 349102004046 putative Zn2+ binding site [ion binding]; other site 349102004047 Predicted permeases [General function prediction only]; Region: COG0701 349102004048 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 349102004049 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 349102004050 putative Zn2+ binding site [ion binding]; other site 349102004051 putative DNA binding site [nucleotide binding]; other site 349102004052 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349102004053 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349102004054 active site 349102004055 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 349102004056 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 349102004057 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 349102004058 Transposase; Region: HTH_Tnp_1; pfam01527 349102004059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349102004060 Integrase core domain; Region: rve; pfam00665 349102004061 Integrase core domain; Region: rve_3; pfam13683 349102004062 TniQ; Region: TniQ; pfam06527 349102004063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102004064 Transposase; Region: HTH_Tnp_1; pfam01527 349102004065 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102004066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102004067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102004068 Transposase; Region: HTH_Tnp_1; pfam01527 349102004069 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102004070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102004071 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102004072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102004073 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102004074 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102004075 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102004076 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349102004077 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 349102004078 Walker A motif; other site 349102004079 ATP binding site [chemical binding]; other site 349102004080 Walker B motif; other site 349102004081 arginine finger; other site 349102004082 Peptidase family M41; Region: Peptidase_M41; pfam01434 349102004083 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 349102004084 AAA domain; Region: AAA_22; pfam13401 349102004085 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102004086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102004087 Transposase [DNA replication, recombination, and repair]; Region: COG5421 349102004088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102004089 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102004090 Homeodomain-like domain; Region: HTH_32; pfam13565 349102004091 Integrase core domain; Region: rve; pfam00665 349102004092 DDE domain; Region: DDE_Tnp_IS240; pfam13610 349102004093 Integrase core domain; Region: rve_3; pfam13683 349102004094 Transposase domain (DUF772); Region: DUF772; pfam05598 349102004095 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102004096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102004097 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102004098 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102004099 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102004100 DDE superfamily endonuclease; Region: DDE_4; cl17710 349102004101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349102004102 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102004103 HAMP domain; Region: HAMP; pfam00672 349102004104 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 349102004105 ATP binding site [chemical binding]; other site 349102004106 Mg2+ binding site [ion binding]; other site 349102004107 G-X-G motif; other site 349102004108 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 349102004109 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 349102004110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102004111 Walker A/P-loop; other site 349102004112 ATP binding site [chemical binding]; other site 349102004113 ABC transporter; Region: ABC_tran; pfam00005 349102004114 Q-loop/lid; other site 349102004115 ABC transporter signature motif; other site 349102004116 Walker B; other site 349102004117 D-loop; other site 349102004118 H-loop/switch region; other site 349102004119 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 349102004120 dimer interface [polypeptide binding]; other site 349102004121 conserved gate region; other site 349102004122 putative PBP binding loops; other site 349102004123 ABC-ATPase subunit interface; other site 349102004124 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 349102004125 hypothetical protein; Provisional; Region: PRK11622 349102004126 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 349102004127 Clp protease; Region: CLP_protease; pfam00574 349102004128 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349102004129 oligomer interface [polypeptide binding]; other site 349102004130 active site residues [active] 349102004131 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 349102004132 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 349102004133 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 349102004134 Walker A motif; other site 349102004135 ATP binding site [chemical binding]; other site 349102004136 Walker B motif; other site 349102004137 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 349102004138 NADH dehydrogenase; Validated; Region: PRK08183 349102004139 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 349102004140 mce related protein; Region: MCE; pfam02470 349102004141 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 349102004142 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 349102004143 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349102004144 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349102004145 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 349102004146 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349102004147 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 349102004148 carboxyltransferase (CT) interaction site; other site 349102004149 biotinylation site [posttranslational modification]; other site 349102004150 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 349102004151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102004152 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349102004153 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349102004154 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 349102004155 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 349102004156 homodimer interface [polypeptide binding]; other site 349102004157 active site 349102004158 FMN binding site [chemical binding]; other site 349102004159 substrate binding site [chemical binding]; other site 349102004160 4Fe-4S binding domain; Region: Fer4_6; pfam12837 349102004161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349102004162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102004163 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 349102004164 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 349102004165 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102004166 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 349102004167 allantoate amidohydrolase; Reviewed; Region: PRK12893 349102004168 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 349102004169 active site 349102004170 metal binding site [ion binding]; metal-binding site 349102004171 dimer interface [polypeptide binding]; other site 349102004172 phenylhydantoinase; Validated; Region: PRK08323 349102004173 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 349102004174 tetramer interface [polypeptide binding]; other site 349102004175 active site 349102004176 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349102004177 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102004178 Walker A/P-loop; other site 349102004179 ATP binding site [chemical binding]; other site 349102004180 Q-loop/lid; other site 349102004181 ABC transporter signature motif; other site 349102004182 Walker B; other site 349102004183 D-loop; other site 349102004184 H-loop/switch region; other site 349102004185 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102004186 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 349102004187 dimer interface [polypeptide binding]; other site 349102004188 conserved gate region; other site 349102004189 putative PBP binding loops; other site 349102004190 ABC-ATPase subunit interface; other site 349102004191 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102004192 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 349102004193 NMT1/THI5 like; Region: NMT1; pfam09084 349102004194 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 349102004195 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 349102004196 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349102004197 putative ligand binding site [chemical binding]; other site 349102004198 NAD binding site [chemical binding]; other site 349102004199 catalytic site [active] 349102004200 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 349102004201 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 349102004202 NAD binding site [chemical binding]; other site 349102004203 homotetramer interface [polypeptide binding]; other site 349102004204 homodimer interface [polypeptide binding]; other site 349102004205 active site 349102004206 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 349102004207 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 349102004208 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349102004209 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 349102004210 non-specific DNA binding site [nucleotide binding]; other site 349102004211 salt bridge; other site 349102004212 sequence-specific DNA binding site [nucleotide binding]; other site 349102004213 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 349102004214 Response regulator receiver domain; Region: Response_reg; pfam00072 349102004215 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 349102004216 active site 349102004217 phosphorylation site [posttranslational modification] 349102004218 intermolecular recognition site; other site 349102004219 dimerization interface [polypeptide binding]; other site 349102004220 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 349102004221 Na binding site [ion binding]; other site 349102004222 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 349102004223 dimer interface [polypeptide binding]; other site 349102004224 phosphorylation site [posttranslational modification] 349102004225 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 349102004226 ATP binding site [chemical binding]; other site 349102004227 Mg2+ binding site [ion binding]; other site 349102004228 G-X-G motif; other site 349102004229 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 349102004230 Putative phosphatase (DUF442); Region: DUF442; cl17385 349102004231 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 349102004232 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 349102004233 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349102004234 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 349102004235 dimer interface [polypeptide binding]; other site 349102004236 conserved gate region; other site 349102004237 putative PBP binding loops; other site 349102004238 ABC-ATPase subunit interface; other site 349102004239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349102004240 Competence-damaged protein; Region: CinA; pfam02464 349102004241 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 349102004242 tetramer interfaces [polypeptide binding]; other site 349102004243 binuclear metal-binding site [ion binding]; other site 349102004244 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 349102004245 homotrimer interaction site [polypeptide binding]; other site 349102004246 zinc binding site [ion binding]; other site 349102004247 CDP-binding sites; other site 349102004248 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 349102004249 substrate binding site; other site 349102004250 dimer interface; other site 349102004251 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 349102004252 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 349102004253 FMN binding site [chemical binding]; other site 349102004254 active site 349102004255 catalytic residues [active] 349102004256 substrate binding site [chemical binding]; other site 349102004257 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349102004258 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 349102004259 putative active site [active] 349102004260 heme pocket [chemical binding]; other site 349102004261 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 349102004262 dimer interface [polypeptide binding]; other site 349102004263 phosphorylation site [posttranslational modification] 349102004264 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 349102004265 ATP binding site [chemical binding]; other site 349102004266 Mg2+ binding site [ion binding]; other site 349102004267 G-X-G motif; other site 349102004268 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349102004269 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 349102004270 active site 349102004271 phosphorylation site [posttranslational modification] 349102004272 intermolecular recognition site; other site 349102004273 dimerization interface [polypeptide binding]; other site 349102004274 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 349102004275 Walker A motif; other site 349102004276 ATP binding site [chemical binding]; other site 349102004277 Walker B motif; other site 349102004278 arginine finger; other site 349102004279 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 349102004280 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349102004281 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 349102004282 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 349102004283 putative active site [active] 349102004284 heme pocket [chemical binding]; other site 349102004285 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 349102004286 dimer interface [polypeptide binding]; other site 349102004287 phosphorylation site [posttranslational modification] 349102004288 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 349102004289 ATP binding site [chemical binding]; other site 349102004290 Mg2+ binding site [ion binding]; other site 349102004291 G-X-G motif; other site 349102004292 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349102004293 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 349102004294 active site 349102004295 phosphorylation site [posttranslational modification] 349102004296 intermolecular recognition site; other site 349102004297 dimerization interface [polypeptide binding]; other site 349102004298 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 349102004299 Walker A motif; other site 349102004300 ATP binding site [chemical binding]; other site 349102004301 Walker B motif; other site 349102004302 arginine finger; other site 349102004303 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102004304 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 349102004305 TrkA-N domain; Region: TrkA_N; pfam02254 349102004306 TrkA-C domain; Region: TrkA_C; pfam02080 349102004307 TrkA-N domain; Region: TrkA_N; pfam02254 349102004308 TrkA-C domain; Region: TrkA_C; pfam02080 349102004309 Cation transport protein; Region: TrkH; cl17365 349102004310 Cation transport protein; Region: TrkH; cl17365 349102004311 bacterial Hfq-like; Region: Hfq; cd01716 349102004312 hexamer interface [polypeptide binding]; other site 349102004313 Sm1 motif; other site 349102004314 RNA binding site [nucleotide binding]; other site 349102004315 Sm2 motif; other site 349102004316 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 349102004317 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 349102004318 HflX GTPase family; Region: HflX; cd01878 349102004319 G1 box; other site 349102004320 GTP/Mg2+ binding site [chemical binding]; other site 349102004321 Switch I region; other site 349102004322 G2 box; other site 349102004323 G3 box; other site 349102004324 Switch II region; other site 349102004325 G4 box; other site 349102004326 G5 box; other site 349102004327 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 349102004328 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 349102004329 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 349102004330 active site 349102004331 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349102004332 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349102004333 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349102004334 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 349102004335 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 349102004336 dimer interface [polypeptide binding]; other site 349102004337 active site 349102004338 aspartate-rich active site metal binding site; other site 349102004339 allosteric magnesium binding site [ion binding]; other site 349102004340 Schiff base residues; other site 349102004341 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 349102004342 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 349102004343 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 349102004344 ATP binding site [chemical binding]; other site 349102004345 putative Mg++ binding site [ion binding]; other site 349102004346 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 349102004347 nucleotide binding region [chemical binding]; other site 349102004348 ATP-binding site [chemical binding]; other site 349102004349 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 349102004350 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 349102004351 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102004352 putative substrate translocation pore; other site 349102004353 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 349102004354 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 349102004355 catalytic residues [active] 349102004356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349102004357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102004358 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102004359 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102004360 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102004361 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349102004362 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349102004363 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 349102004364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102004365 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 349102004366 NAD(P) binding site [chemical binding]; other site 349102004367 active site 349102004368 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 349102004369 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 349102004370 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 349102004371 rRNA interaction site [nucleotide binding]; other site 349102004372 S8 interaction site; other site 349102004373 putative laminin-1 binding site; other site 349102004374 elongation factor Ts; Provisional; Region: tsf; PRK09377 349102004375 UBA/TS-N domain; Region: UBA; pfam00627 349102004376 Elongation factor TS; Region: EF_TS; pfam00889 349102004377 Elongation factor TS; Region: EF_TS; pfam00889 349102004378 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 349102004379 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 349102004380 substrate binding site [chemical binding]; other site 349102004381 hexamer interface [polypeptide binding]; other site 349102004382 metal binding site [ion binding]; metal-binding site 349102004383 Predicted flavoproteins [General function prediction only]; Region: COG2081 349102004384 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102004385 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 349102004386 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 349102004387 homodimer interface [polypeptide binding]; other site 349102004388 Walker A motif; other site 349102004389 ATP binding site [chemical binding]; other site 349102004390 hydroxycobalamin binding site [chemical binding]; other site 349102004391 Walker B motif; other site 349102004392 NnrS protein; Region: NnrS; pfam05940 349102004393 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 349102004394 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 349102004395 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 349102004396 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 349102004397 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 349102004398 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 349102004399 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 349102004400 Precorrin-8X methylmutase; Region: CbiC; pfam02570 349102004401 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 349102004402 active site 349102004403 SAM binding site [chemical binding]; other site 349102004404 homodimer interface [polypeptide binding]; other site 349102004405 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 349102004406 active site 349102004407 SAM binding site [chemical binding]; other site 349102004408 homodimer interface [polypeptide binding]; other site 349102004409 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 349102004410 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 349102004411 active site 349102004412 putative homodimer interface [polypeptide binding]; other site 349102004413 SAM binding site [chemical binding]; other site 349102004414 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 349102004415 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 349102004416 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 349102004417 active site 349102004418 SAM binding site [chemical binding]; other site 349102004419 homodimer interface [polypeptide binding]; other site 349102004420 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 349102004421 active site 349102004422 SAM binding site [chemical binding]; other site 349102004423 homodimer interface [polypeptide binding]; other site 349102004424 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 349102004425 active site 349102004426 SAM binding site [chemical binding]; other site 349102004427 homodimer interface [polypeptide binding]; other site 349102004428 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 349102004429 active site 349102004430 dimer interface [polypeptide binding]; other site 349102004431 metal binding site [ion binding]; metal-binding site 349102004432 shikimate kinase; Provisional; Region: PRK13946 349102004433 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 349102004434 ADP binding site [chemical binding]; other site 349102004435 magnesium binding site [ion binding]; other site 349102004436 putative shikimate binding site; other site 349102004437 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 349102004438 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 349102004439 active site 349102004440 DNA binding site [nucleotide binding] 349102004441 Int/Topo IB signature motif; other site 349102004442 Domain of unknown function DUF21; Region: DUF21; pfam01595 349102004443 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 349102004444 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 349102004445 Transporter associated domain; Region: CorC_HlyC; smart01091 349102004446 Helix-turn-helix domain; Region: HTH_38; pfam13936 349102004447 Domain of unknown function (DUF305); Region: DUF305; cl17794 349102004448 Peptidase C26; Region: Peptidase_C26; pfam07722 349102004449 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 349102004450 catalytic triad [active] 349102004451 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349102004452 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349102004453 DNA binding site [nucleotide binding] 349102004454 domain linker motif; other site 349102004455 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 349102004456 putative ligand binding site [chemical binding]; other site 349102004457 putative dimerization interface [polypeptide binding]; other site 349102004458 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 349102004459 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 349102004460 substrate binding site [chemical binding]; other site 349102004461 oxyanion hole (OAH) forming residues; other site 349102004462 trimer interface [polypeptide binding]; other site 349102004463 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 349102004464 active site 2 [active] 349102004465 active site 1 [active] 349102004466 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 349102004467 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 349102004468 Coenzyme A transferase; Region: CoA_trans; smart00882 349102004469 Coenzyme A transferase; Region: CoA_trans; cl17247 349102004470 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102004471 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102004472 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102004473 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102004474 DctM-like transporters; Region: DctM; pfam06808 349102004475 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 349102004476 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 349102004477 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 349102004478 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 349102004479 substrate binding site [chemical binding]; other site 349102004480 oxyanion hole (OAH) forming residues; other site 349102004481 trimer interface [polypeptide binding]; other site 349102004482 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 349102004483 L-aspartate oxidase; Provisional; Region: PRK06175 349102004484 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349102004485 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349102004486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349102004487 active site 349102004488 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 349102004489 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 349102004490 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102004491 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 349102004492 Amidohydrolase; Region: Amidohydro_2; pfam04909 349102004493 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 349102004494 DctM-like transporters; Region: DctM; pfam06808 349102004495 Putative cyclase; Region: Cyclase; pfam04199 349102004496 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 349102004497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102004498 NAD(P) binding site [chemical binding]; other site 349102004499 active site 349102004500 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 349102004501 Coenzyme A transferase; Region: CoA_trans; smart00882 349102004502 Coenzyme A transferase; Region: CoA_trans; cl17247 349102004503 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102004504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102004505 DNA-binding site [nucleotide binding]; DNA binding site 349102004506 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 349102004507 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 349102004508 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349102004509 4Fe-4S binding domain; Region: Fer4; pfam00037 349102004510 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 349102004511 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 349102004512 RNA binding surface [nucleotide binding]; other site 349102004513 TPR repeat; Region: TPR_11; pfam13414 349102004514 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 349102004515 binding surface 349102004516 TPR motif; other site 349102004517 TPR repeat; Region: TPR_11; pfam13414 349102004518 SCP-2 sterol transfer family; Region: SCP2; pfam02036 349102004519 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 349102004520 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 349102004521 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 349102004522 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 349102004523 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349102004524 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 349102004525 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349102004526 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 349102004527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 349102004528 Uncharacterized conserved protein [Function unknown]; Region: COG2308 349102004529 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 349102004530 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349102004531 ATP-dependent DNA ligase; Validated; Region: PRK09247 349102004532 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 349102004533 active site 349102004534 DNA binding site [nucleotide binding] 349102004535 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 349102004536 DNA binding site [nucleotide binding] 349102004537 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 349102004538 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349102004539 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 349102004540 active site 349102004541 Zn binding site [ion binding]; other site 349102004542 Methyltransferase domain; Region: Methyltransf_12; pfam08242 349102004543 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 349102004544 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349102004545 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102004546 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 349102004547 DNA binding residues [nucleotide binding] 349102004548 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349102004549 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 349102004550 RNA binding surface [nucleotide binding]; other site 349102004551 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349102004552 active site 349102004553 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 349102004554 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102004555 dimer interface [polypeptide binding]; other site 349102004556 phosphorylation site [posttranslational modification] 349102004557 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 349102004558 ATP binding site [chemical binding]; other site 349102004559 Mg2+ binding site [ion binding]; other site 349102004560 G-X-G motif; other site 349102004561 Response regulator receiver domain; Region: Response_reg; pfam00072 349102004562 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 349102004563 active site 349102004564 phosphorylation site [posttranslational modification] 349102004565 intermolecular recognition site; other site 349102004566 dimerization interface [polypeptide binding]; other site 349102004567 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 349102004568 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 349102004569 FeS/SAM binding site; other site 349102004570 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349102004571 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102004572 FAD dependent oxidoreductase; Region: DAO; pfam01266 349102004573 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102004574 acetylornithine deacetylase; Provisional; Region: PRK07522 349102004575 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 349102004576 metal binding site [ion binding]; metal-binding site 349102004577 putative dimer interface [polypeptide binding]; other site 349102004578 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 349102004579 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 349102004580 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 349102004581 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 349102004582 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 349102004583 ligand binding site [chemical binding]; other site 349102004584 homodimer interface [polypeptide binding]; other site 349102004585 NAD(P) binding site [chemical binding]; other site 349102004586 trimer interface B [polypeptide binding]; other site 349102004587 trimer interface A [polypeptide binding]; other site 349102004588 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 349102004589 Phospholipid methyltransferase; Region: PEMT; cl17370 349102004590 kynureninase; Region: kynureninase; TIGR01814 349102004591 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 349102004592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102004593 catalytic residue [active] 349102004594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349102004595 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102004596 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 349102004597 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 349102004598 NADP binding site [chemical binding]; other site 349102004599 dimer interface [polypeptide binding]; other site 349102004600 PRC-barrel domain; Region: PRC; pfam05239 349102004601 Peptidase family M48; Region: Peptidase_M48; cl12018 349102004602 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349102004603 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349102004604 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 349102004605 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 349102004606 putative substrate binding site [chemical binding]; other site 349102004607 putative ATP binding site [chemical binding]; other site 349102004608 NAD synthetase; Provisional; Region: PRK13981 349102004609 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 349102004610 multimer interface [polypeptide binding]; other site 349102004611 active site 349102004612 catalytic triad [active] 349102004613 protein interface 1 [polypeptide binding]; other site 349102004614 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 349102004615 homodimer interface [polypeptide binding]; other site 349102004616 NAD binding pocket [chemical binding]; other site 349102004617 ATP binding pocket [chemical binding]; other site 349102004618 Mg binding site [ion binding]; other site 349102004619 active-site loop [active] 349102004620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 349102004621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 349102004622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 349102004623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 349102004624 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 349102004625 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 349102004626 Multicopper oxidase; Region: Cu-oxidase; pfam00394 349102004627 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 349102004628 Uncharacterized conserved protein [Function unknown]; Region: COG1262 349102004629 pseudoazurin; Region: pseudoazurin; TIGR02375 349102004630 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 349102004631 2-isopropylmalate synthase; Validated; Region: PRK00915 349102004632 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 349102004633 active site 349102004634 catalytic residues [active] 349102004635 metal binding site [ion binding]; metal-binding site 349102004636 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 349102004637 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 349102004638 rod shape-determining protein MreB; Provisional; Region: PRK13927 349102004639 MreB and similar proteins; Region: MreB_like; cd10225 349102004640 nucleotide binding site [chemical binding]; other site 349102004641 Mg binding site [ion binding]; other site 349102004642 putative protofilament interaction site [polypeptide binding]; other site 349102004643 RodZ interaction site [polypeptide binding]; other site 349102004644 rod shape-determining protein MreC; Provisional; Region: PRK13922 349102004645 rod shape-determining protein MreC; Region: MreC; pfam04085 349102004646 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349102004647 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349102004648 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349102004649 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 349102004650 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349102004651 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349102004652 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 349102004653 putative active site [active] 349102004654 N-formylglutamate amidohydrolase; Region: FGase; cl01522 349102004655 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349102004656 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 349102004657 DctM-like transporters; Region: DctM; pfam06808 349102004658 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102004659 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102004660 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349102004661 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349102004662 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349102004663 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 349102004664 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 349102004665 NAD(P) binding site [chemical binding]; other site 349102004666 catalytic residues [active] 349102004667 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349102004668 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 349102004669 putative active site [active] 349102004670 metal binding site [ion binding]; metal-binding site 349102004671 FAD dependent oxidoreductase; Region: DAO; pfam01266 349102004672 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102004673 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 349102004674 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349102004675 active site 349102004676 catalytic tetrad [active] 349102004677 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 349102004678 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102004679 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349102004680 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 349102004681 DNA binding residues [nucleotide binding] 349102004682 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 349102004683 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 349102004684 FHIPEP family; Region: FHIPEP; pfam00771 349102004685 LPP20 lipoprotein; Region: LPP20; pfam02169 349102004686 SAF-like; Region: SAF_2; pfam13144 349102004687 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 349102004688 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 349102004689 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349102004690 Sel1-like repeats; Region: SEL1; smart00671 349102004691 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 349102004692 Flagellar protein FliS; Region: FliS; cl00654 349102004693 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 349102004694 putative binding surface; other site 349102004695 active site 349102004696 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 349102004697 Response regulator receiver domain; Region: Response_reg; pfam00072 349102004698 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 349102004699 active site 349102004700 phosphorylation site [posttranslational modification] 349102004701 intermolecular recognition site; other site 349102004702 dimerization interface [polypeptide binding]; other site 349102004703 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102004704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102004705 dimer interface [polypeptide binding]; other site 349102004706 putative CheW interface [polypeptide binding]; other site 349102004707 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349102004708 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 349102004709 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 349102004710 Magnesium ion binding site [ion binding]; other site 349102004711 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 349102004712 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 349102004713 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 349102004714 active site 349102004715 phosphorylation site [posttranslational modification] 349102004716 intermolecular recognition site; other site 349102004717 dimerization interface [polypeptide binding]; other site 349102004718 CheB methylesterase; Region: CheB_methylest; pfam01339 349102004719 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349102004720 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 349102004721 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 349102004722 S-adenosylmethionine binding site [chemical binding]; other site 349102004723 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349102004724 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349102004725 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 349102004726 ATP binding site [chemical binding]; other site 349102004727 Mg2+ binding site [ion binding]; other site 349102004728 G-X-G motif; other site 349102004729 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 349102004730 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 349102004731 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349102004732 Walker A motif; other site 349102004733 ATP binding site [chemical binding]; other site 349102004734 Walker B motif; other site 349102004735 arginine finger; other site 349102004736 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 349102004737 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 349102004738 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 349102004739 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 349102004740 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 349102004741 FliG C-terminal domain; Region: FliG_C; pfam01706 349102004742 Flagellar assembly protein FliH; Region: FliH; pfam02108 349102004743 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 349102004744 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 349102004745 Walker A motif; other site 349102004746 ATP binding site [chemical binding]; other site 349102004747 Walker B motif; other site 349102004748 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 349102004749 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 349102004750 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 349102004751 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 349102004752 flagellar motor switch protein FliN; Region: fliN; TIGR02480 349102004753 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 349102004754 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 349102004755 flagellar biosynthetic protein FliQ; Region: fliQ; TIGR01402 349102004756 flagellar biosynthetic protein FliR; Region: fliR; TIGR01400 349102004757 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 349102004758 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 349102004759 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 349102004760 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349102004761 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 349102004762 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349102004763 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349102004764 flagellin; Provisional; Region: PRK12806 349102004765 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 349102004766 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 349102004767 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 349102004768 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 349102004769 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 349102004770 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 349102004771 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 349102004772 Walker A motif; other site 349102004773 ATP binding site [chemical binding]; other site 349102004774 Walker B motif; other site 349102004775 arginine finger; other site 349102004776 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 349102004777 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102004778 catalytic residue [active] 349102004779 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 349102004780 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 349102004781 Rod binding protein; Region: Rod-binding; pfam10135 349102004782 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 349102004783 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 349102004784 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 349102004785 Flagellar L-ring protein; Region: FlgH; pfam02107 349102004786 flagellar basal-body rod protein FlgG, Gram-negative bacteria; Region: flgG_G_neg; TIGR02488 349102004787 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102004788 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102004789 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 349102004790 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102004791 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 349102004792 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102004793 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 349102004794 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 349102004795 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 349102004796 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 349102004797 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102004798 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 349102004799 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 349102004800 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349102004801 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 349102004802 putative active site [active] 349102004803 heme pocket [chemical binding]; other site 349102004804 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 349102004805 dimer interface [polypeptide binding]; other site 349102004806 phosphorylation site [posttranslational modification] 349102004807 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 349102004808 ATP binding site [chemical binding]; other site 349102004809 Mg2+ binding site [ion binding]; other site 349102004810 G-X-G motif; other site 349102004811 Response regulator receiver domain; Region: Response_reg; pfam00072 349102004812 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 349102004813 active site 349102004814 phosphorylation site [posttranslational modification] 349102004815 intermolecular recognition site; other site 349102004816 dimerization interface [polypeptide binding]; other site 349102004817 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 349102004818 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102004819 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 349102004820 active site 349102004821 phosphorylation site [posttranslational modification] 349102004822 intermolecular recognition site; other site 349102004823 dimerization interface [polypeptide binding]; other site 349102004824 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 349102004825 DNA binding residues [nucleotide binding] 349102004826 dimerization interface [polypeptide binding]; other site 349102004827 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 349102004828 dimerization interface [polypeptide binding]; other site 349102004829 metal binding site [ion binding]; metal-binding site 349102004830 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 349102004831 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 349102004832 motif II; other site 349102004833 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 349102004834 MarR family; Region: MarR_2; pfam12802 349102004835 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 349102004836 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349102004837 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349102004838 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 349102004839 putative PBP binding loops; other site 349102004840 ABC-ATPase subunit interface; other site 349102004841 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102004842 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 349102004843 dimer interface [polypeptide binding]; other site 349102004844 conserved gate region; other site 349102004845 putative PBP binding loops; other site 349102004846 ABC-ATPase subunit interface; other site 349102004847 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 349102004848 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 349102004849 Walker A/P-loop; other site 349102004850 ATP binding site [chemical binding]; other site 349102004851 Q-loop/lid; other site 349102004852 ABC transporter signature motif; other site 349102004853 Walker B; other site 349102004854 D-loop; other site 349102004855 H-loop/switch region; other site 349102004856 TOBE domain; Region: TOBE_2; pfam08402 349102004857 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 349102004858 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349102004859 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349102004860 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 349102004861 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102004862 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 349102004863 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 349102004864 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 349102004865 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; pfam00507 349102004866 NADH dehydrogenase subunit B; Validated; Region: PRK06411 349102004867 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 349102004868 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 349102004869 NADH dehydrogenase subunit D; Validated; Region: PRK06075 349102004870 NADH dehydrogenase subunit E; Validated; Region: PRK07539 349102004871 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 349102004872 putative dimer interface [polypeptide binding]; other site 349102004873 [2Fe-2S] cluster binding site [ion binding]; other site 349102004874 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 349102004875 SLBB domain; Region: SLBB; pfam10531 349102004876 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 349102004877 NADH dehydrogenase subunit G; Validated; Region: PRK08166 349102004878 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 349102004879 catalytic loop [active] 349102004880 iron binding site [ion binding]; other site 349102004881 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 349102004882 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 349102004883 molybdopterin cofactor binding site; other site 349102004884 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 349102004885 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 349102004886 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 349102004887 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 349102004888 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 349102004889 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 349102004890 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 349102004891 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102004892 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 349102004893 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102004894 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349102004895 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102004896 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 349102004897 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 349102004898 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 349102004899 putative active site [active] 349102004900 putative active site [active] 349102004901 catalytic site [active] 349102004902 catalytic site [active] 349102004903 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 349102004904 putative active site [active] 349102004905 catalytic site [active] 349102004906 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 349102004907 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 349102004908 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 349102004909 D-pathway; other site 349102004910 Putative ubiquinol binding site [chemical binding]; other site 349102004911 Low-spin heme (heme b) binding site [chemical binding]; other site 349102004912 Putative water exit pathway; other site 349102004913 Binuclear center (heme o3/CuB) [ion binding]; other site 349102004914 K-pathway; other site 349102004915 Putative proton exit pathway; other site 349102004916 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 349102004917 Cytochrome c; Region: Cytochrom_C; cl11414 349102004918 Cytochrome c; Region: Cytochrom_C; cl11414 349102004919 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 349102004920 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 349102004921 Cytochrome c; Region: Cytochrom_C; pfam00034 349102004922 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 349102004923 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349102004924 active site 349102004925 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349102004926 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349102004927 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102004928 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 349102004929 DNA binding residues [nucleotide binding] 349102004930 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 349102004931 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349102004932 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 349102004933 DNA binding residues [nucleotide binding] 349102004934 dimerization interface [polypeptide binding]; other site 349102004935 Autoinducer synthetase; Region: Autoind_synth; cl17404 349102004936 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 349102004937 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 349102004938 glucosyltransferase MdoH; Provisional; Region: PRK05454 349102004939 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349102004940 active site 349102004941 OpgC protein; Region: OpgC_C; pfam10129 349102004942 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 349102004943 Protein of unknown function (DUF330); Region: DUF330; cl01135 349102004944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 349102004945 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 349102004946 mce related protein; Region: MCE; pfam02470 349102004947 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 349102004948 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 349102004949 Walker A/P-loop; other site 349102004950 ATP binding site [chemical binding]; other site 349102004951 Q-loop/lid; other site 349102004952 ABC transporter signature motif; other site 349102004953 Walker B; other site 349102004954 D-loop; other site 349102004955 H-loop/switch region; other site 349102004956 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 349102004957 anti sigma factor interaction site; other site 349102004958 regulatory phosphorylation site [posttranslational modification]; other site 349102004959 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 349102004960 Permease; Region: Permease; pfam02405 349102004961 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 349102004962 active site 349102004963 DNA binding site [nucleotide binding] 349102004964 Int/Topo IB signature motif; other site 349102004965 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 349102004966 HNH endonuclease; Region: HNH_3; pfam13392 349102004967 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 349102004968 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 349102004969 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 349102004970 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 349102004971 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 349102004972 non-specific DNA binding site [nucleotide binding]; other site 349102004973 salt bridge; other site 349102004974 sequence-specific DNA binding site [nucleotide binding]; other site 349102004975 Bacterial dnaA protein helix-turn-helix domain; Region: Bac_DnaA_C; smart00760 349102004976 DnaA box-binding interface [nucleotide binding]; other site 349102004977 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 349102004978 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 349102004979 active site 349102004980 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 349102004981 Phage portal protein; Region: Phage_portal; pfam04860 349102004982 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349102004983 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 349102004984 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349102004985 tandem repeat interface [polypeptide binding]; other site 349102004986 oligomer interface [polypeptide binding]; other site 349102004987 active site residues [active] 349102004988 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 349102004989 Phage capsid family; Region: Phage_capsid; pfam05065 349102004990 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 349102004991 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349102004992 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 349102004993 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 349102004994 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349102004995 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102004996 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 349102004997 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349102004998 Cytochrome c; Region: Cytochrom_C; cl11414 349102004999 Cytochrome c553 [Energy production and conversion]; Region: COG2863 349102005000 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 349102005001 putative inner membrane protein; Provisional; Region: PRK11099 349102005002 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 349102005003 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 349102005004 active site residue [active] 349102005005 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 349102005006 active site residue [active] 349102005007 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 349102005008 homotrimer interaction site [polypeptide binding]; other site 349102005009 putative active site [active] 349102005010 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 349102005011 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 349102005012 active site 349102005013 dimer interface [polypeptide binding]; other site 349102005014 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 349102005015 dimer interface [polypeptide binding]; other site 349102005016 active site 349102005017 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 349102005018 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 349102005019 putative active site [active] 349102005020 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 349102005021 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 349102005022 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 349102005023 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 349102005024 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 349102005025 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 349102005026 active site 349102005027 catalytic site [active] 349102005028 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 349102005029 Domain of unknown function (DUF1953); Region: DUF1953; pfam09196 349102005030 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 349102005031 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 349102005032 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 349102005033 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 349102005034 catalytic site [active] 349102005035 active site 349102005036 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 349102005037 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 349102005038 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 349102005039 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 349102005040 active site 349102005041 catalytic site [active] 349102005042 glycogen branching enzyme; Provisional; Region: PRK05402 349102005043 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 349102005044 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 349102005045 active site 349102005046 catalytic site [active] 349102005047 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 349102005048 trehalose synthase; Region: treS_nterm; TIGR02456 349102005049 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 349102005050 active site 349102005051 catalytic site [active] 349102005052 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 349102005053 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 349102005054 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 349102005055 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 349102005056 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 349102005057 active site 349102005058 homodimer interface [polypeptide binding]; other site 349102005059 catalytic site [active] 349102005060 acceptor binding site [chemical binding]; other site 349102005061 Response regulator receiver domain; Region: Response_reg; pfam00072 349102005062 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 349102005063 active site 349102005064 phosphorylation site [posttranslational modification] 349102005065 intermolecular recognition site; other site 349102005066 dimerization interface [polypeptide binding]; other site 349102005067 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 349102005068 dimerization interface [polypeptide binding]; other site 349102005069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102005070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102005071 dimer interface [polypeptide binding]; other site 349102005072 putative CheW interface [polypeptide binding]; other site 349102005073 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102005074 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102005075 dimer interface [polypeptide binding]; other site 349102005076 putative CheW interface [polypeptide binding]; other site 349102005077 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13491 349102005078 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 349102005079 Response regulator receiver domain; Region: Response_reg; pfam00072 349102005080 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 349102005081 active site 349102005082 phosphorylation site [posttranslational modification] 349102005083 intermolecular recognition site; other site 349102005084 dimerization interface [polypeptide binding]; other site 349102005085 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 349102005086 putative binding surface; other site 349102005087 active site 349102005088 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349102005089 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349102005090 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 349102005091 ATP binding site [chemical binding]; other site 349102005092 Mg2+ binding site [ion binding]; other site 349102005093 G-X-G motif; other site 349102005094 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 349102005095 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 349102005096 putative CheA interaction surface; other site 349102005097 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349102005098 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 349102005099 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 349102005100 Response regulator receiver domain; Region: Response_reg; pfam00072 349102005101 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 349102005102 active site 349102005103 phosphorylation site [posttranslational modification] 349102005104 intermolecular recognition site; other site 349102005105 dimerization interface [polypeptide binding]; other site 349102005106 Integrase core domain; Region: rve_3; pfam13683 349102005107 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102005108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102005109 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102005110 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 349102005111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349102005112 Integrase core domain; Region: rve; pfam00665 349102005113 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 349102005114 DNA-binding interface [nucleotide binding]; DNA binding site 349102005115 Transposase; Region: HTH_Tnp_1; pfam01527 349102005116 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102005117 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102005118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102005119 Transposase; Region: HTH_Tnp_1; pfam01527 349102005120 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102005121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102005122 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102005123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102005124 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102005125 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102005126 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 349102005127 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 349102005128 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 349102005129 Walker A motif; other site 349102005130 ATP binding site [chemical binding]; other site 349102005131 Walker B motif; other site 349102005132 arginine finger; other site 349102005133 Homeodomain-like domain; Region: HTH_23; pfam13384 349102005134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 349102005135 Integrase core domain; Region: rve; pfam00665 349102005136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 349102005137 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102005138 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102005139 Winged helix-turn helix; Region: HTH_29; pfam13551 349102005140 Integrase core domain; Region: rve; pfam00665 349102005141 Integrase core domain; Region: rve_3; pfam13683 349102005142 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102005143 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102005144 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 349102005145 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 349102005146 dimer interface [polypeptide binding]; other site 349102005147 ssDNA binding site [nucleotide binding]; other site 349102005148 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349102005149 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 349102005150 ERF superfamily; Region: ERF; pfam04404 349102005151 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102005152 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102005153 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102005154 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 349102005155 Part of AAA domain; Region: AAA_19; pfam13245 349102005156 Family description; Region: UvrD_C_2; pfam13538 349102005157 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349102005158 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 349102005159 Transposase; Region: HTH_Tnp_1; cl17663 349102005160 HTH-like domain; Region: HTH_21; pfam13276 349102005161 Integrase core domain; Region: rve; pfam00665 349102005162 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102005163 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102005164 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102005165 Integrase core domain; Region: rve_3; pfam13683 349102005166 Integrase core domain; Region: rve_3; pfam13683 349102005167 transposase; Validated; Region: PRK08181 349102005168 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 349102005169 Walker A motif; other site 349102005170 ATP binding site [chemical binding]; other site 349102005171 Walker B motif; other site 349102005172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 349102005173 Integrase core domain; Region: rve; pfam00665 349102005174 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 349102005175 Walker A motif; other site 349102005176 ATP binding site [chemical binding]; other site 349102005177 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102005178 Integrase core domain; Region: rve; pfam00665 349102005179 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 349102005180 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102005181 DDE superfamily endonuclease; Region: DDE_4; cl17710 349102005182 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102005183 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 349102005184 UPF0126 domain; Region: UPF0126; pfam03458 349102005185 Predicted membrane protein [Function unknown]; Region: COG2860 349102005186 UPF0126 domain; Region: UPF0126; pfam03458 349102005187 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102005188 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 349102005189 ligand binding site [chemical binding]; other site 349102005190 flexible hinge region; other site 349102005191 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 349102005192 putative switch regulator; other site 349102005193 non-specific DNA interactions [nucleotide binding]; other site 349102005194 DNA binding site [nucleotide binding] 349102005195 sequence specific DNA binding site [nucleotide binding]; other site 349102005196 putative cAMP binding site [chemical binding]; other site 349102005197 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 349102005198 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 349102005199 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 349102005200 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 349102005201 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 349102005202 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102005203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102005204 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349102005205 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 349102005206 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 349102005207 putative substrate translocation pore; other site 349102005208 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102005209 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 349102005210 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 349102005211 Protein of unknown function; Region: DUF3971; pfam13116 349102005212 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 349102005213 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 349102005214 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 349102005215 catalytic triad [active] 349102005216 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349102005217 Peptidase family M23; Region: Peptidase_M23; pfam01551 349102005218 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 349102005219 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 349102005220 peptide chain release factor 2; Validated; Region: prfB; PRK00578 349102005221 This domain is found in peptide chain release factors; Region: PCRF; smart00937 349102005222 RF-1 domain; Region: RF-1; pfam00472 349102005223 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 349102005224 Transglycosylase; Region: Transgly; pfam00912 349102005225 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349102005226 AMIN domain; Region: AMIN; pfam11741 349102005227 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 349102005228 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 349102005229 active site 349102005230 metal binding site [ion binding]; metal-binding site 349102005231 aspartate aminotransferase; Provisional; Region: PRK05764 349102005232 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 349102005233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102005234 homodimer interface [polypeptide binding]; other site 349102005235 catalytic residue [active] 349102005236 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 349102005237 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 349102005238 catalytic residues [active] 349102005239 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349102005240 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 349102005241 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349102005242 Helix-turn-helix domain; Region: HTH_25; pfam13413 349102005243 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 349102005244 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 349102005245 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 349102005246 substrate-cofactor binding pocket; other site 349102005247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102005248 catalytic residue [active] 349102005249 hypothetical protein; Validated; Region: PRK09104 349102005250 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 349102005251 metal binding site [ion binding]; metal-binding site 349102005252 putative dimer interface [polypeptide binding]; other site 349102005253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102005254 Coenzyme A binding pocket [chemical binding]; other site 349102005255 GMP synthase; Reviewed; Region: guaA; PRK00074 349102005256 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 349102005257 AMP/PPi binding site [chemical binding]; other site 349102005258 candidate oxyanion hole; other site 349102005259 catalytic triad [active] 349102005260 potential glutamine specificity residues [chemical binding]; other site 349102005261 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 349102005262 ATP Binding subdomain [chemical binding]; other site 349102005263 Ligand Binding sites [chemical binding]; other site 349102005264 Dimerization subdomain; other site 349102005265 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102005266 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 349102005267 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 349102005268 Walker A/P-loop; other site 349102005269 ATP binding site [chemical binding]; other site 349102005270 Q-loop/lid; other site 349102005271 ABC transporter signature motif; other site 349102005272 Walker B; other site 349102005273 D-loop; other site 349102005274 H-loop/switch region; other site 349102005275 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349102005276 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349102005277 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 349102005278 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 349102005279 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 349102005280 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 349102005281 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 349102005282 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 349102005283 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 349102005284 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349102005285 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 349102005286 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 349102005287 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102005288 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 349102005289 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 349102005290 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 349102005291 NnrU protein; Region: NnrU; pfam07298 349102005292 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 349102005293 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 349102005294 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349102005295 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 349102005296 active site 349102005297 Zn binding site [ion binding]; other site 349102005298 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 349102005299 catalytic residues [active] 349102005300 dimer interface [polypeptide binding]; other site 349102005301 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 349102005302 nudix motif; other site 349102005303 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 349102005304 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 349102005305 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 349102005306 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 349102005307 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 349102005308 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 349102005309 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 349102005310 active site 349102005311 DNA binding site [nucleotide binding] 349102005312 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 349102005313 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 349102005314 heme binding pocket [chemical binding]; other site 349102005315 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 349102005316 domain interactions; other site 349102005317 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 349102005318 Cytochrome P450; Region: p450; cl12078 349102005319 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 349102005320 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349102005321 NAD(P) binding site [chemical binding]; other site 349102005322 2-amino-3-ketobutyrate coenzyme A ligase; Provisional; Region: PRK06939 349102005323 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 349102005324 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102005325 catalytic residue [active] 349102005326 Uncharacterized conserved protein [Function unknown]; Region: COG0397 349102005327 hypothetical protein; Validated; Region: PRK00029 349102005328 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102005329 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 349102005330 active site 349102005331 phosphorylation site [posttranslational modification] 349102005332 intermolecular recognition site; other site 349102005333 dimerization interface [polypeptide binding]; other site 349102005334 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 349102005335 DNA binding site [nucleotide binding] 349102005336 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349102005337 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 349102005338 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 349102005339 Ligand Binding Site [chemical binding]; other site 349102005340 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 349102005341 methionine sulfoxide reductase B; Provisional; Region: PRK00222 349102005342 SelR domain; Region: SelR; pfam01641 349102005343 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 349102005344 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 349102005345 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 349102005346 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 349102005347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349102005348 putative phosphate acyltransferase; Provisional; Region: PRK05331 349102005349 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 349102005350 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 349102005351 dimer interface [polypeptide binding]; other site 349102005352 active site 349102005353 CoA binding pocket [chemical binding]; other site 349102005354 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 349102005355 IHF dimer interface [polypeptide binding]; other site 349102005356 IHF - DNA interface [nucleotide binding]; other site 349102005357 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 349102005358 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349102005359 DNA binding residues [nucleotide binding] 349102005360 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 349102005361 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 349102005362 trimer interface [polypeptide binding]; other site 349102005363 active site 349102005364 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349102005365 trimer interface [polypeptide binding]; other site 349102005366 active site 349102005367 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 349102005368 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 349102005369 dimerization interface [polypeptide binding]; other site 349102005370 putative DNA binding site [nucleotide binding]; other site 349102005371 putative Zn2+ binding site [ion binding]; other site 349102005372 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 349102005373 PBP superfamily domain; Region: PBP_like_2; pfam12849 349102005374 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 349102005375 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 349102005376 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 349102005377 dimer interface [polypeptide binding]; other site 349102005378 conserved gate region; other site 349102005379 putative PBP binding loops; other site 349102005380 ABC-ATPase subunit interface; other site 349102005381 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 349102005382 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 349102005383 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 349102005384 dimer interface [polypeptide binding]; other site 349102005385 conserved gate region; other site 349102005386 putative PBP binding loops; other site 349102005387 ABC-ATPase subunit interface; other site 349102005388 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 349102005389 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 349102005390 Walker A/P-loop; other site 349102005391 ATP binding site [chemical binding]; other site 349102005392 Q-loop/lid; other site 349102005393 ABC transporter signature motif; other site 349102005394 Walker B; other site 349102005395 D-loop; other site 349102005396 H-loop/switch region; other site 349102005397 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 349102005398 PhoU domain; Region: PhoU; pfam01895 349102005399 PhoU domain; Region: PhoU; pfam01895 349102005400 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 349102005401 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 349102005402 active site 349102005403 phosphorylation site [posttranslational modification] 349102005404 intermolecular recognition site; other site 349102005405 dimerization interface [polypeptide binding]; other site 349102005406 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 349102005407 DNA binding site [nucleotide binding] 349102005408 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102005409 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 349102005410 dimer interface [polypeptide binding]; other site 349102005411 conserved gate region; other site 349102005412 putative PBP binding loops; other site 349102005413 ABC-ATPase subunit interface; other site 349102005414 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 349102005415 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 349102005416 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349102005417 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102005418 Walker A/P-loop; other site 349102005419 ATP binding site [chemical binding]; other site 349102005420 Q-loop/lid; other site 349102005421 ABC transporter signature motif; other site 349102005422 Walker B; other site 349102005423 D-loop; other site 349102005424 H-loop/switch region; other site 349102005425 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102005426 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 349102005427 dimer interface [polypeptide binding]; other site 349102005428 phosphorylation site [posttranslational modification] 349102005429 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 349102005430 ATP binding site [chemical binding]; other site 349102005431 Mg2+ binding site [ion binding]; other site 349102005432 G-X-G motif; other site 349102005433 Response regulator receiver domain; Region: Response_reg; pfam00072 349102005434 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 349102005435 active site 349102005436 phosphorylation site [posttranslational modification] 349102005437 intermolecular recognition site; other site 349102005438 dimerization interface [polypeptide binding]; other site 349102005439 FIST N domain; Region: FIST; pfam08495 349102005440 FIST C domain; Region: FIST_C; pfam10442 349102005441 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102005442 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 349102005443 active site 349102005444 phosphorylation site [posttranslational modification] 349102005445 intermolecular recognition site; other site 349102005446 dimerization interface [polypeptide binding]; other site 349102005447 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 349102005448 DNA binding residues [nucleotide binding] 349102005449 dimerization interface [polypeptide binding]; other site 349102005450 Predicted secreted protein [Function unknown]; Region: COG5501 349102005451 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 349102005452 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 349102005453 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349102005454 ABC-2 type transporter; Region: ABC2_membrane; cl17235 349102005455 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349102005456 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 349102005457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102005458 Walker A/P-loop; other site 349102005459 ATP binding site [chemical binding]; other site 349102005460 Q-loop/lid; other site 349102005461 ABC transporter signature motif; other site 349102005462 Walker B; other site 349102005463 D-loop; other site 349102005464 H-loop/switch region; other site 349102005465 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 349102005466 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 349102005467 structural tetrad; other site 349102005468 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 349102005469 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 349102005470 ligand binding site [chemical binding]; other site 349102005471 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 349102005472 active site residue [active] 349102005473 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 349102005474 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102005475 substrate binding pocket [chemical binding]; other site 349102005476 membrane-bound complex binding site; other site 349102005477 hinge residues; other site 349102005478 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 349102005479 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349102005480 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 349102005481 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 349102005482 Trp docking motif [polypeptide binding]; other site 349102005483 dimer interface [polypeptide binding]; other site 349102005484 active site 349102005485 small subunit binding site [polypeptide binding]; other site 349102005486 Cytochrome c2 [Energy production and conversion]; Region: COG3474 349102005487 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 349102005488 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 349102005489 substrate binding site [chemical binding]; other site 349102005490 catalytic Zn binding site [ion binding]; other site 349102005491 NAD binding site [chemical binding]; other site 349102005492 structural Zn binding site [ion binding]; other site 349102005493 dimer interface [polypeptide binding]; other site 349102005494 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 349102005495 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 349102005496 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102005497 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 349102005498 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102005499 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 349102005500 ligand binding site [chemical binding]; other site 349102005501 flexible hinge region; other site 349102005502 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 349102005503 putative switch regulator; other site 349102005504 non-specific DNA interactions [nucleotide binding]; other site 349102005505 DNA binding site [nucleotide binding] 349102005506 sequence specific DNA binding site [nucleotide binding]; other site 349102005507 putative cAMP binding site [chemical binding]; other site 349102005508 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 349102005509 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349102005510 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 349102005511 intracellular protease, PfpI family; Region: PfpI; TIGR01382 349102005512 proposed catalytic triad [active] 349102005513 conserved cys residue [active] 349102005514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102005515 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102005516 NAD(P) binding site [chemical binding]; other site 349102005517 active site 349102005518 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 349102005519 active site 349102005520 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 349102005521 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102005522 extended (e) SDRs; Region: SDR_e; cd08946 349102005523 NAD(P) binding site [chemical binding]; other site 349102005524 active site 349102005525 substrate binding site [chemical binding]; other site 349102005526 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349102005527 active site 349102005528 tetramer interface; other site 349102005529 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349102005530 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 349102005531 Ligand binding site; other site 349102005532 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349102005533 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 349102005534 active site 349102005535 Chain length determinant protein; Region: Wzz; cl15801 349102005536 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 349102005537 Chain length determinant protein; Region: Wzz; cl15801 349102005538 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 349102005539 P-loop; other site 349102005540 Magnesium ion binding site [ion binding]; other site 349102005541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102005542 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349102005543 Walker A/P-loop; other site 349102005544 ATP binding site [chemical binding]; other site 349102005545 Q-loop/lid; other site 349102005546 ABC transporter signature motif; other site 349102005547 Walker B; other site 349102005548 D-loop; other site 349102005549 H-loop/switch region; other site 349102005550 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 349102005551 active site 349102005552 metal-binding site [ion binding] 349102005553 nucleotide-binding site [chemical binding]; other site 349102005554 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 349102005555 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 349102005556 dimer interface [polypeptide binding]; other site 349102005557 active site 349102005558 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 349102005559 Ligand Binding Site [chemical binding]; other site 349102005560 Molecular Tunnel; other site 349102005561 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 349102005562 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 349102005563 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349102005564 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 349102005565 active site 349102005566 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 349102005567 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 349102005568 active site 349102005569 active site 349102005570 catalytic residues [active] 349102005571 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 349102005572 O-Antigen ligase; Region: Wzy_C; pfam04932 349102005573 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 349102005574 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349102005575 SLBB domain; Region: SLBB; pfam10531 349102005576 Bacterial sugar transferase; Region: Bac_transf; pfam02397 349102005577 stationary phase survival protein SurE; Provisional; Region: PRK13931 349102005578 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 349102005579 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 349102005580 S-adenosylmethionine binding site [chemical binding]; other site 349102005581 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349102005582 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349102005583 Peptidase family M23; Region: Peptidase_M23; pfam01551 349102005584 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 349102005585 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 349102005586 Walker A motif; other site 349102005587 ATP binding site [chemical binding]; other site 349102005588 Walker B motif; other site 349102005589 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 349102005590 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349102005591 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349102005592 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349102005593 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 349102005594 Walker A/P-loop; other site 349102005595 ATP binding site [chemical binding]; other site 349102005596 Q-loop/lid; other site 349102005597 ABC transporter signature motif; other site 349102005598 Walker B; other site 349102005599 D-loop; other site 349102005600 H-loop/switch region; other site 349102005601 TOBE domain; Region: TOBE_2; pfam08402 349102005602 short chain dehydrogenase; Provisional; Region: PRK08339 349102005603 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 349102005604 putative NAD(P) binding site [chemical binding]; other site 349102005605 putative active site [active] 349102005606 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 349102005607 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 349102005608 G1 box; other site 349102005609 putative GEF interaction site [polypeptide binding]; other site 349102005610 GTP/Mg2+ binding site [chemical binding]; other site 349102005611 Switch I region; other site 349102005612 G2 box; other site 349102005613 G3 box; other site 349102005614 Switch II region; other site 349102005615 G4 box; other site 349102005616 G5 box; other site 349102005617 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 349102005618 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 349102005619 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349102005620 ATP binding site [chemical binding]; other site 349102005621 Mg++ binding site [ion binding]; other site 349102005622 motif III; other site 349102005623 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 349102005624 nucleotide binding region [chemical binding]; other site 349102005625 ATP-binding site [chemical binding]; other site 349102005626 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 349102005627 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349102005628 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 349102005629 pantothenate kinase; Reviewed; Region: PRK13318 349102005630 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 349102005631 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 349102005632 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 349102005633 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349102005634 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102005635 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 349102005636 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102005637 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349102005638 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 349102005639 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102005640 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 349102005641 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 349102005642 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 349102005643 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 349102005644 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 349102005645 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 349102005646 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 349102005647 4Fe-4S binding domain; Region: Fer4; pfam00037 349102005648 4Fe-4S binding domain; Region: Fer4; pfam00037 349102005649 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 349102005650 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 349102005651 NADH dehydrogenase subunit G; Validated; Region: PRK09130 349102005652 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 349102005653 catalytic loop [active] 349102005654 iron binding site [ion binding]; other site 349102005655 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 349102005656 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 349102005657 molybdopterin cofactor binding site; other site 349102005658 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 349102005659 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 349102005660 SLBB domain; Region: SLBB; pfam10531 349102005661 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 349102005662 NADH dehydrogenase subunit E; Validated; Region: PRK07539 349102005663 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 349102005664 putative dimer interface [polypeptide binding]; other site 349102005665 [2Fe-2S] cluster binding site [ion binding]; other site 349102005666 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 349102005667 NADH dehydrogenase subunit D; Validated; Region: PRK06075 349102005668 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 349102005669 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 349102005670 NADH dehydrogenase subunit B; Validated; Region: PRK06411 349102005671 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 349102005672 enoyl-CoA hydratase; Provisional; Region: PRK07468 349102005673 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 349102005674 substrate binding site [chemical binding]; other site 349102005675 oxyanion hole (OAH) forming residues; other site 349102005676 trimer interface [polypeptide binding]; other site 349102005677 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 349102005678 active site 349102005679 catalytic residues [active] 349102005680 metal binding site [ion binding]; metal-binding site 349102005681 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 349102005682 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349102005683 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349102005684 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349102005685 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 349102005686 carboxyltransferase (CT) interaction site; other site 349102005687 biotinylation site [posttranslational modification]; other site 349102005688 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 349102005689 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 349102005690 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 349102005691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349102005692 isovaleryl-CoA dehydrogenase; Region: PLN02519 349102005693 active site 349102005694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 349102005695 CreA protein; Region: CreA; pfam05981 349102005696 phosphoglycolate phosphatase; Provisional; Region: PRK13222 349102005697 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 349102005698 motif II; other site 349102005699 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 349102005700 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 349102005701 Substrate binding site; other site 349102005702 Mg++ binding site; other site 349102005703 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 349102005704 active site 349102005705 substrate binding site [chemical binding]; other site 349102005706 CoA binding site [chemical binding]; other site 349102005707 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 349102005708 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 349102005709 glutaminase active site [active] 349102005710 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 349102005711 dimer interface [polypeptide binding]; other site 349102005712 active site 349102005713 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 349102005714 dimer interface [polypeptide binding]; other site 349102005715 active site 349102005716 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 349102005717 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102005718 catalytic residue [active] 349102005719 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349102005720 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102005721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102005722 Walker A/P-loop; other site 349102005723 ATP binding site [chemical binding]; other site 349102005724 Q-loop/lid; other site 349102005725 ABC transporter signature motif; other site 349102005726 Walker B; other site 349102005727 D-loop; other site 349102005728 H-loop/switch region; other site 349102005729 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 349102005730 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 349102005731 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349102005732 elongation factor P; Validated; Region: PRK00529 349102005733 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349102005734 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 349102005735 RNA binding site [nucleotide binding]; other site 349102005736 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 349102005737 RNA binding site [nucleotide binding]; other site 349102005738 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 349102005739 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 349102005740 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 349102005741 S-adenosylmethionine binding site [chemical binding]; other site 349102005742 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 349102005743 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102005744 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 349102005745 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 349102005746 TPP-binding site; other site 349102005747 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 349102005748 PYR/PP interface [polypeptide binding]; other site 349102005749 dimer interface [polypeptide binding]; other site 349102005750 TPP binding site [chemical binding]; other site 349102005751 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349102005752 Intrinsic membrane protein PufX; Region: RhodobacterPufX; pfam11511 349102005753 photosynthetic reaction center subunit M; Provisional; Region: PRK14504 349102005754 pheophytin binding site; other site 349102005755 chlorophyll binding site; other site 349102005756 quinone binding site; other site 349102005757 Fe binding site [ion binding]; other site 349102005758 photosynthetic reaction center subunit L; Provisional; Region: PRK14506 349102005759 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 349102005760 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 349102005761 PufQ cytochrome subunit; Region: PufQ; pfam05398 349102005762 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349102005763 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 349102005764 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 349102005765 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349102005766 Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L...; Region: BchX; cd02033 349102005767 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 349102005768 P-loop; other site 349102005769 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 349102005770 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 349102005771 putative NAD(P) binding site [chemical binding]; other site 349102005772 O-methyltransferase; Region: Methyltransf_2; pfam00891 349102005773 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349102005774 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349102005775 substrate binding pocket [chemical binding]; other site 349102005776 chain length determination region; other site 349102005777 substrate-Mg2+ binding site; other site 349102005778 catalytic residues [active] 349102005779 aspartate-rich region 1; other site 349102005780 active site lid residues [active] 349102005781 aspartate-rich region 2; other site 349102005782 phytoene desaturase; Region: crtI_fam; TIGR02734 349102005783 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102005784 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 349102005785 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 349102005786 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 349102005787 inhibitor site; inhibition site 349102005788 active site 349102005789 dimer interface [polypeptide binding]; other site 349102005790 catalytic residue [active] 349102005791 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 349102005792 putative active site [active] 349102005793 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102005794 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 349102005795 DctM-like transporters; Region: DctM; pfam06808 349102005796 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 349102005797 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 349102005798 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 349102005799 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 349102005800 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102005801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102005802 DNA-binding site [nucleotide binding]; DNA binding site 349102005803 FCD domain; Region: FCD; pfam07729 349102005804 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 349102005805 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 349102005806 ligand binding site [chemical binding]; other site 349102005807 NAD binding site [chemical binding]; other site 349102005808 dimerization interface [polypeptide binding]; other site 349102005809 catalytic site [active] 349102005810 allantoate amidohydrolase; Reviewed; Region: PRK12890 349102005811 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 349102005812 active site 349102005813 metal binding site [ion binding]; metal-binding site 349102005814 dimer interface [polypeptide binding]; other site 349102005815 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102005816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102005817 DNA-binding site [nucleotide binding]; DNA binding site 349102005818 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349102005819 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349102005820 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 349102005821 active site 349102005822 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 349102005823 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 349102005824 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 349102005825 putative ligand binding site [chemical binding]; other site 349102005826 NAD binding site [chemical binding]; other site 349102005827 dimerization interface [polypeptide binding]; other site 349102005828 catalytic site [active] 349102005829 hypothetical protein; Validated; Region: PRK08245 349102005830 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 349102005831 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 349102005832 putative NAD(P) binding site [chemical binding]; other site 349102005833 putative active site [active] 349102005834 aspartate aminotransferase; Provisional; Region: PRK05764 349102005835 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 349102005836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102005837 homodimer interface [polypeptide binding]; other site 349102005838 catalytic residue [active] 349102005839 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 349102005840 homotrimer interaction site [polypeptide binding]; other site 349102005841 putative active site [active] 349102005842 aspartate aminotransferase; Provisional; Region: PRK06207 349102005843 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 349102005844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102005845 homodimer interface [polypeptide binding]; other site 349102005846 catalytic residue [active] 349102005847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102005848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102005849 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 349102005850 putative dimerization interface [polypeptide binding]; other site 349102005851 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349102005852 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102005853 substrate binding pocket [chemical binding]; other site 349102005854 membrane-bound complex binding site; other site 349102005855 hinge residues; other site 349102005856 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349102005857 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349102005858 Walker A/P-loop; other site 349102005859 ATP binding site [chemical binding]; other site 349102005860 Q-loop/lid; other site 349102005861 ABC transporter signature motif; other site 349102005862 Walker B; other site 349102005863 D-loop; other site 349102005864 H-loop/switch region; other site 349102005865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349102005866 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349102005867 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 349102005868 dimer interface [polypeptide binding]; other site 349102005869 conserved gate region; other site 349102005870 ABC-ATPase subunit interface; other site 349102005871 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 349102005872 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349102005873 tetramer interface [polypeptide binding]; other site 349102005874 active site 349102005875 catalytic triad [active] 349102005876 dimer interface [polypeptide binding]; other site 349102005877 dihydropyrimidinase; Provisional; Region: PRK13404 349102005878 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 349102005879 tetramer interface [polypeptide binding]; other site 349102005880 active site 349102005881 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349102005882 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 349102005883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102005884 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 349102005885 putative dimerization interface [polypeptide binding]; other site 349102005886 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 349102005887 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 349102005888 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102005889 active site 349102005890 HIGH motif; other site 349102005891 nucleotide binding site [chemical binding]; other site 349102005892 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349102005893 KMSKS motif; other site 349102005894 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349102005895 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 349102005896 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 349102005897 active site 349102005898 catalytic residues [active] 349102005899 metal binding site [ion binding]; metal-binding site 349102005900 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 349102005901 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 349102005902 S-adenosylmethionine binding site [chemical binding]; other site 349102005903 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 349102005904 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 349102005905 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349102005906 minor groove reading motif; other site 349102005907 helix-hairpin-helix signature motif; other site 349102005908 substrate binding pocket [chemical binding]; other site 349102005909 active site 349102005910 putative hydrolase; Provisional; Region: PRK11460 349102005911 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 349102005912 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 349102005913 putative active site [active] 349102005914 putative NTP binding site [chemical binding]; other site 349102005915 putative nucleic acid binding site [nucleotide binding]; other site 349102005916 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 349102005917 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 349102005918 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349102005919 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 349102005920 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 349102005921 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 349102005922 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 349102005923 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 349102005924 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 349102005925 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 349102005926 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 349102005927 Protein of unknown function (DUF935); Region: DUF935; pfam06074 349102005928 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 349102005929 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 349102005930 Terminase-like family; Region: Terminase_6; pfam03237 349102005931 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 349102005932 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 349102005933 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 349102005934 amidase catalytic site [active] 349102005935 Zn binding residues [ion binding]; other site 349102005936 substrate binding site [chemical binding]; other site 349102005937 Bacterial SH3 domain homologues; Region: SH3b; smart00287 349102005938 MT-A70; Region: MT-A70; cl01947 349102005939 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 349102005940 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 349102005941 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 349102005942 DnaA box-binding interface [nucleotide binding]; other site 349102005943 AAA domain; Region: AAA_22; pfam13401 349102005944 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 349102005945 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 349102005946 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 349102005947 ParB-like nuclease domain; Region: ParB; smart00470 349102005948 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 349102005949 IHF dimer interface [polypeptide binding]; other site 349102005950 IHF - DNA interface [nucleotide binding]; other site 349102005951 Predicted transcriptional regulator [Transcription]; Region: COG2932 349102005952 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 349102005953 Catalytic site [active] 349102005954 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 349102005955 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 349102005956 active site 349102005957 Integrase core domain; Region: rve; pfam00665 349102005958 Integrase core domain; Region: rve_3; pfam13683 349102005959 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 349102005960 Walker A motif; other site 349102005961 ATP binding site [chemical binding]; other site 349102005962 Walker B motif; other site 349102005963 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102005964 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102005965 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102005966 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 349102005967 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 349102005968 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 349102005969 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102005970 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 349102005971 putative DNA binding site [nucleotide binding]; other site 349102005972 putative Zn2+ binding site [ion binding]; other site 349102005973 AsnC family; Region: AsnC_trans_reg; pfam01037 349102005974 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 349102005975 ABC transporter ATPase component; Reviewed; Region: PRK11147 349102005976 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102005977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102005978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102005979 Q-loop/lid; other site 349102005980 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349102005981 ABC transporter signature motif; other site 349102005982 Walker B; other site 349102005983 D-loop; other site 349102005984 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 349102005985 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 349102005986 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 349102005987 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 349102005988 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 349102005989 active site 349102005990 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 349102005991 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 349102005992 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 349102005993 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 349102005994 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349102005995 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349102005996 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349102005997 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349102005998 Surface antigen; Region: Bac_surface_Ag; pfam01103 349102005999 RIP metalloprotease RseP; Region: TIGR00054 349102006000 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 349102006001 active site 349102006002 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 349102006003 protein binding site [polypeptide binding]; other site 349102006004 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 349102006005 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 349102006006 putative substrate binding region [chemical binding]; other site 349102006007 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 349102006008 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 349102006009 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 349102006010 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 349102006011 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 349102006012 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 349102006013 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 349102006014 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 349102006015 catalytic residue [active] 349102006016 putative FPP diphosphate binding site; other site 349102006017 putative FPP binding hydrophobic cleft; other site 349102006018 dimer interface [polypeptide binding]; other site 349102006019 putative IPP diphosphate binding site; other site 349102006020 ribosome recycling factor; Reviewed; Region: frr; PRK00083 349102006021 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 349102006022 hinge region; other site 349102006023 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 349102006024 putative nucleotide binding site [chemical binding]; other site 349102006025 uridine monophosphate binding site [chemical binding]; other site 349102006026 homohexameric interface [polypeptide binding]; other site 349102006027 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 349102006028 IPP transferase; Region: IPPT; pfam01715 349102006029 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349102006030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349102006031 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349102006032 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 349102006033 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349102006034 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 349102006035 dimer interface [polypeptide binding]; other site 349102006036 conserved gate region; other site 349102006037 putative PBP binding loops; other site 349102006038 ABC-ATPase subunit interface; other site 349102006039 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349102006040 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 349102006041 conserved gate region; other site 349102006042 ABC-ATPase subunit interface; other site 349102006043 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349102006044 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102006045 Walker A/P-loop; other site 349102006046 ATP binding site [chemical binding]; other site 349102006047 Q-loop/lid; other site 349102006048 ABC transporter signature motif; other site 349102006049 Walker B; other site 349102006050 D-loop; other site 349102006051 H-loop/switch region; other site 349102006052 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102006053 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102006054 Walker A/P-loop; other site 349102006055 ATP binding site [chemical binding]; other site 349102006056 Q-loop/lid; other site 349102006057 ABC transporter signature motif; other site 349102006058 Walker B; other site 349102006059 D-loop; other site 349102006060 H-loop/switch region; other site 349102006061 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102006062 GTP-binding protein Der; Reviewed; Region: PRK00093 349102006063 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 349102006064 G1 box; other site 349102006065 GTP/Mg2+ binding site [chemical binding]; other site 349102006066 Switch I region; other site 349102006067 G2 box; other site 349102006068 Switch II region; other site 349102006069 G3 box; other site 349102006070 G4 box; other site 349102006071 G5 box; other site 349102006072 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 349102006073 G1 box; other site 349102006074 GTP/Mg2+ binding site [chemical binding]; other site 349102006075 Switch I region; other site 349102006076 G2 box; other site 349102006077 G3 box; other site 349102006078 Switch II region; other site 349102006079 G4 box; other site 349102006080 G5 box; other site 349102006081 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 349102006082 Trp docking motif [polypeptide binding]; other site 349102006083 active site 349102006084 PQQ-like domain; Region: PQQ_2; pfam13360 349102006085 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349102006086 EamA-like transporter family; Region: EamA; pfam00892 349102006087 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 349102006088 Homoserine O-succinyltransferase; Region: HTS; pfam04204 349102006089 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 349102006090 proposed active site lysine [active] 349102006091 conserved cys residue [active] 349102006092 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349102006093 Epoxide hydrolase N terminus; Region: EHN; pfam06441 349102006094 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 349102006095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349102006096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102006097 WHG domain; Region: WHG; pfam13305 349102006098 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349102006099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102006100 Walker A/P-loop; other site 349102006101 ATP binding site [chemical binding]; other site 349102006102 Q-loop/lid; other site 349102006103 ABC transporter signature motif; other site 349102006104 Walker B; other site 349102006105 D-loop; other site 349102006106 H-loop/switch region; other site 349102006107 TOBE domain; Region: TOBE_2; pfam08402 349102006108 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349102006109 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 349102006110 dimer interface [polypeptide binding]; other site 349102006111 conserved gate region; other site 349102006112 putative PBP binding loops; other site 349102006113 ABC-ATPase subunit interface; other site 349102006114 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 349102006115 dimer interface [polypeptide binding]; other site 349102006116 conserved gate region; other site 349102006117 putative PBP binding loops; other site 349102006118 ABC-ATPase subunit interface; other site 349102006119 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 349102006120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102006121 DNA-binding site [nucleotide binding]; DNA binding site 349102006122 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 349102006123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102006124 homodimer interface [polypeptide binding]; other site 349102006125 catalytic residue [active] 349102006126 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 349102006127 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 349102006128 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 349102006129 23S rRNA interface [nucleotide binding]; other site 349102006130 L3 interface [polypeptide binding]; other site 349102006131 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 349102006132 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 349102006133 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349102006134 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 349102006135 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 349102006136 extended (e) SDRs; Region: SDR_e; cd08946 349102006137 NAD(P) binding site [chemical binding]; other site 349102006138 active site 349102006139 substrate binding site [chemical binding]; other site 349102006140 short chain dehydrogenase; Provisional; Region: PRK07109 349102006141 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 349102006142 putative NAD(P) binding site [chemical binding]; other site 349102006143 active site 349102006144 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 349102006145 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 349102006146 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 349102006147 PAS fold; Region: PAS; pfam00989 349102006148 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 349102006149 PAS fold; Region: PAS_3; pfam08447 349102006150 putative active site [active] 349102006151 heme pocket [chemical binding]; other site 349102006152 PAS domain S-box; Region: sensory_box; TIGR00229 349102006153 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 349102006154 putative active site [active] 349102006155 heme pocket [chemical binding]; other site 349102006156 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102006157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102006158 metal binding site [ion binding]; metal-binding site 349102006159 active site 349102006160 I-site; other site 349102006161 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 349102006162 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 349102006163 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349102006164 dimerization interface [polypeptide binding]; other site 349102006165 ligand binding site [chemical binding]; other site 349102006166 NADP binding site [chemical binding]; other site 349102006167 catalytic site [active] 349102006168 Bacterial SH3 domain; Region: SH3_4; pfam06347 349102006169 Bacterial SH3 domain; Region: SH3_4; pfam06347 349102006170 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 349102006171 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 349102006172 ring oligomerisation interface [polypeptide binding]; other site 349102006173 ATP/Mg binding site [chemical binding]; other site 349102006174 stacking interactions; other site 349102006175 hinge regions; other site 349102006176 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 349102006177 oligomerisation interface [polypeptide binding]; other site 349102006178 mobile loop; other site 349102006179 roof hairpin; other site 349102006180 TraB family; Region: TraB; pfam01963 349102006181 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 349102006182 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 349102006183 DHHA2 domain; Region: DHHA2; pfam02833 349102006184 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 349102006185 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 349102006186 active site 349102006187 motif I; other site 349102006188 motif II; other site 349102006189 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 349102006190 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 349102006191 dimer interaction site [polypeptide binding]; other site 349102006192 substrate-binding tunnel; other site 349102006193 active site 349102006194 catalytic site [active] 349102006195 substrate binding site [chemical binding]; other site 349102006196 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 349102006197 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 349102006198 active site 349102006199 Riboflavin kinase; Region: Flavokinase; pfam01687 349102006200 hypothetical protein; Provisional; Region: PRK05170 349102006201 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 349102006202 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 349102006203 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102006204 catalytic residue [active] 349102006205 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 349102006206 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 349102006207 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102006208 active site 349102006209 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 349102006210 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 349102006211 gamma subunit interface [polypeptide binding]; other site 349102006212 epsilon subunit interface [polypeptide binding]; other site 349102006213 LBP interface [polypeptide binding]; other site 349102006214 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 349102006215 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349102006216 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 349102006217 alpha subunit interaction interface [polypeptide binding]; other site 349102006218 Walker A motif; other site 349102006219 ATP binding site [chemical binding]; other site 349102006220 Walker B motif; other site 349102006221 inhibitor binding site; inhibition site 349102006222 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349102006223 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 349102006224 core domain interface [polypeptide binding]; other site 349102006225 delta subunit interface [polypeptide binding]; other site 349102006226 epsilon subunit interface [polypeptide binding]; other site 349102006227 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 349102006228 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349102006229 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 349102006230 beta subunit interaction interface [polypeptide binding]; other site 349102006231 Walker A motif; other site 349102006232 ATP binding site [chemical binding]; other site 349102006233 Walker B motif; other site 349102006234 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349102006235 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 349102006236 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 349102006237 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349102006238 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 349102006239 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 349102006240 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 349102006241 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 349102006242 Walker A motif; other site 349102006243 ATP binding site [chemical binding]; other site 349102006244 Walker B motif; other site 349102006245 arginine finger; other site 349102006246 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 349102006247 Walker A motif; other site 349102006248 ATP binding site [chemical binding]; other site 349102006249 Walker B motif; other site 349102006250 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 349102006251 hypothetical protein; Validated; Region: PRK09039 349102006252 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102006253 ligand binding site [chemical binding]; other site 349102006254 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 349102006255 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 349102006256 putative active site pocket [active] 349102006257 dimerization interface [polypeptide binding]; other site 349102006258 putative catalytic residue [active] 349102006259 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 349102006260 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 349102006261 prephenate dehydrogenase; Validated; Region: PRK08507 349102006262 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 349102006263 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 349102006264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102006265 homodimer interface [polypeptide binding]; other site 349102006266 catalytic residue [active] 349102006267 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 349102006268 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 349102006269 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 349102006270 RNA binding surface [nucleotide binding]; other site 349102006271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102006272 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 349102006273 active site 349102006274 phosphorylation site [posttranslational modification] 349102006275 intermolecular recognition site; other site 349102006276 dimerization interface [polypeptide binding]; other site 349102006277 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 349102006278 DNA binding site [nucleotide binding] 349102006279 PAS fold; Region: PAS_7; pfam12860 349102006280 PAS domain; Region: PAS_10; pfam13596 349102006281 sensory histidine kinase AtoS; Provisional; Region: PRK11360 349102006282 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 349102006283 ATP binding site [chemical binding]; other site 349102006284 Mg2+ binding site [ion binding]; other site 349102006285 G-X-G motif; other site 349102006286 Response regulator receiver domain; Region: Response_reg; pfam00072 349102006287 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 349102006288 active site 349102006289 phosphorylation site [posttranslational modification] 349102006290 intermolecular recognition site; other site 349102006291 dimerization interface [polypeptide binding]; other site 349102006292 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 349102006293 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 349102006294 acyl-activating enzyme (AAE) consensus motif; other site 349102006295 putative AMP binding site [chemical binding]; other site 349102006296 putative active site [active] 349102006297 putative CoA binding site [chemical binding]; other site 349102006298 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349102006299 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 349102006300 Walker A/P-loop; other site 349102006301 ATP binding site [chemical binding]; other site 349102006302 Q-loop/lid; other site 349102006303 ABC transporter signature motif; other site 349102006304 Walker B; other site 349102006305 D-loop; other site 349102006306 H-loop/switch region; other site 349102006307 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102006308 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 349102006309 TM-ABC transporter signature motif; other site 349102006310 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 349102006311 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 349102006312 TM-ABC transporter signature motif; other site 349102006313 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 349102006314 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102006315 putative ligand binding site [chemical binding]; other site 349102006316 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349102006317 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 349102006318 Walker A/P-loop; other site 349102006319 ATP binding site [chemical binding]; other site 349102006320 Q-loop/lid; other site 349102006321 ABC transporter signature motif; other site 349102006322 Walker B; other site 349102006323 D-loop; other site 349102006324 H-loop/switch region; other site 349102006325 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102006326 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 349102006327 acyl-activating enzyme (AAE) consensus motif; other site 349102006328 active site 349102006329 AMP binding site [chemical binding]; other site 349102006330 CoA binding site [chemical binding]; other site 349102006331 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 349102006332 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 349102006333 amidase catalytic site [active] 349102006334 Zn binding residues [ion binding]; other site 349102006335 substrate binding site [chemical binding]; other site 349102006336 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349102006337 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 349102006338 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 349102006339 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349102006340 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349102006341 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 349102006342 nucleoside/Zn binding site; other site 349102006343 dimer interface [polypeptide binding]; other site 349102006344 catalytic motif [active] 349102006345 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349102006346 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 349102006347 RNA binding surface [nucleotide binding]; other site 349102006348 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 349102006349 active site 349102006350 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 349102006351 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 349102006352 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 349102006353 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 349102006354 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 349102006355 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 349102006356 Predicted membrane protein [Function unknown]; Region: COG1238 349102006357 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 349102006358 active site 349102006359 ATP binding site [chemical binding]; other site 349102006360 substrate binding site [chemical binding]; other site 349102006361 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349102006362 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 349102006363 putative substrate binding site [chemical binding]; other site 349102006364 putative ATP binding site [chemical binding]; other site 349102006365 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 349102006366 dimerization interface [polypeptide binding]; other site 349102006367 putative tRNAtyr binding site [nucleotide binding]; other site 349102006368 putative active site [active] 349102006369 AMP-binding domain protein; Validated; Region: PRK07529 349102006370 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102006371 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102006372 acyl-activating enzyme (AAE) consensus motif; other site 349102006373 AMP binding site [chemical binding]; other site 349102006374 active site 349102006375 CoA binding site [chemical binding]; other site 349102006376 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 349102006377 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102006378 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 349102006379 Walker A/P-loop; other site 349102006380 ATP binding site [chemical binding]; other site 349102006381 Q-loop/lid; other site 349102006382 ABC transporter signature motif; other site 349102006383 Walker B; other site 349102006384 D-loop; other site 349102006385 H-loop/switch region; other site 349102006386 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 349102006387 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 349102006388 hypothetical protein; Provisional; Region: PRK06815 349102006389 tetramer interface [polypeptide binding]; other site 349102006390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102006391 catalytic residue [active] 349102006392 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 349102006393 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 349102006394 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349102006395 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 349102006396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102006397 putative substrate translocation pore; other site 349102006398 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 349102006399 elongation factor G; Reviewed; Region: PRK12740 349102006400 G1 box; other site 349102006401 putative GEF interaction site [polypeptide binding]; other site 349102006402 GTP/Mg2+ binding site [chemical binding]; other site 349102006403 Switch I region; other site 349102006404 G2 box; other site 349102006405 G3 box; other site 349102006406 Switch II region; other site 349102006407 G4 box; other site 349102006408 G5 box; other site 349102006409 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 349102006410 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 349102006411 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 349102006412 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 349102006413 putative active site pocket [active] 349102006414 4-fold oligomerization interface [polypeptide binding]; other site 349102006415 metal binding residues [ion binding]; metal-binding site 349102006416 3-fold/trimer interface [polypeptide binding]; other site 349102006417 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 349102006418 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 349102006419 putative active site [active] 349102006420 oxyanion strand; other site 349102006421 catalytic triad [active] 349102006422 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 349102006423 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 349102006424 catalytic residues [active] 349102006425 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 349102006426 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349102006427 substrate binding site [chemical binding]; other site 349102006428 glutamase interaction surface [polypeptide binding]; other site 349102006429 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 349102006430 metal binding site [ion binding]; metal-binding site 349102006431 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 349102006432 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 349102006433 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 349102006434 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 349102006435 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 349102006436 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102006437 putative substrate translocation pore; other site 349102006438 multidrug resistance protein MdtN; Provisional; Region: PRK10476 349102006439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102006440 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102006441 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349102006442 MarR family; Region: MarR_2; pfam12802 349102006443 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349102006444 Beta-lactamase; Region: Beta-lactamase; pfam00144 349102006445 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 349102006446 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 349102006447 FeS/SAM binding site; other site 349102006448 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 349102006449 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 349102006450 Fe-S cluster binding site [ion binding]; other site 349102006451 active site 349102006452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 349102006453 active site 349102006454 phosphorylation site [posttranslational modification] 349102006455 intermolecular recognition site; other site 349102006456 dimerization interface [polypeptide binding]; other site 349102006457 CheB methylesterase; Region: CheB_methylest; pfam01339 349102006458 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349102006459 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 349102006460 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 349102006461 PAS domain; Region: PAS_10; pfam13596 349102006462 PAS fold; Region: PAS_4; pfam08448 349102006463 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 349102006464 putative active site [active] 349102006465 heme pocket [chemical binding]; other site 349102006466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102006467 HWE histidine kinase; Region: HWE_HK; smart00911 349102006468 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 349102006469 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 349102006470 ligand binding site; other site 349102006471 oligomer interface; other site 349102006472 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 349102006473 sulfate 1 binding site; other site 349102006474 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 349102006475 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 349102006476 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 349102006477 active site 349102006478 catalytic site [active] 349102006479 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102006480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102006481 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102006482 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349102006483 Protein export membrane protein; Region: SecD_SecF; cl14618 349102006484 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 349102006485 Domain of unknown function (DUF333); Region: DUF333; pfam03891 349102006486 adenylosuccinate lyase; Provisional; Region: PRK07492 349102006487 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 349102006488 tetramer interface [polypeptide binding]; other site 349102006489 active site 349102006490 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 349102006491 FliG C-terminal domain; Region: FliG_C; pfam01706 349102006492 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 349102006493 putative acyl-acceptor binding pocket; other site 349102006494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349102006495 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102006496 aminotransferase; Provisional; Region: PRK13356 349102006497 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349102006498 homodimer interface [polypeptide binding]; other site 349102006499 substrate-cofactor binding pocket; other site 349102006500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102006501 catalytic residue [active] 349102006502 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 349102006503 Ligand Binding Site [chemical binding]; other site 349102006504 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 349102006505 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 349102006506 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 349102006507 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349102006508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349102006509 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 349102006510 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 349102006511 ligand binding site [chemical binding]; other site 349102006512 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349102006513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102006514 Walker A/P-loop; other site 349102006515 ATP binding site [chemical binding]; other site 349102006516 Q-loop/lid; other site 349102006517 ABC transporter signature motif; other site 349102006518 Walker B; other site 349102006519 D-loop; other site 349102006520 H-loop/switch region; other site 349102006521 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349102006522 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102006523 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349102006524 TM-ABC transporter signature motif; other site 349102006525 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102006526 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349102006527 TM-ABC transporter signature motif; other site 349102006528 purine nucleoside phosphorylase; Provisional; Region: PRK08202 349102006529 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349102006530 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 349102006531 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349102006532 CoenzymeA binding site [chemical binding]; other site 349102006533 subunit interaction site [polypeptide binding]; other site 349102006534 PHB binding site; other site 349102006535 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 349102006536 DNA binding residues [nucleotide binding] 349102006537 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349102006538 putative dimer interface [polypeptide binding]; other site 349102006539 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 349102006540 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349102006541 DNA binding residues [nucleotide binding] 349102006542 putative dimer interface [polypeptide binding]; other site 349102006543 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349102006544 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349102006545 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349102006546 active site 349102006547 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349102006548 Uncharacterized conserved protein [Function unknown]; Region: COG3791 349102006549 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 349102006550 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 349102006551 dimer interface [polypeptide binding]; other site 349102006552 active site 349102006553 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 349102006554 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 349102006555 substrate binding site [chemical binding]; other site 349102006556 oxyanion hole (OAH) forming residues; other site 349102006557 trimer interface [polypeptide binding]; other site 349102006558 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349102006559 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349102006560 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349102006561 glycine dehydrogenase; Provisional; Region: PRK05367 349102006562 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 349102006563 tetramer interface [polypeptide binding]; other site 349102006564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102006565 catalytic residue [active] 349102006566 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 349102006567 tetramer interface [polypeptide binding]; other site 349102006568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102006569 catalytic residue [active] 349102006570 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 349102006571 lipoyl attachment site [posttranslational modification]; other site 349102006572 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 349102006573 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349102006574 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 349102006575 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 349102006576 active site 349102006577 substrate binding site [chemical binding]; other site 349102006578 coenzyme B12 binding site [chemical binding]; other site 349102006579 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 349102006580 B12 binding site [chemical binding]; other site 349102006581 cobalt ligand [ion binding]; other site 349102006582 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 349102006583 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 349102006584 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349102006585 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 349102006586 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349102006587 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 349102006588 carboxyltransferase (CT) interaction site; other site 349102006589 biotinylation site [posttranslational modification]; other site 349102006590 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 349102006591 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 349102006592 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 349102006593 Protein of unknown function, DUF486; Region: DUF486; cl01236 349102006594 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 349102006595 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 349102006596 putative substrate translocation pore; other site 349102006597 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349102006598 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 349102006599 non-specific DNA binding site [nucleotide binding]; other site 349102006600 salt bridge; other site 349102006601 sequence-specific DNA binding site [nucleotide binding]; other site 349102006602 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 349102006603 Domain of unknown function (DUF955); Region: DUF955; pfam06114 349102006604 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 349102006605 Staphylococcal nuclease homologues; Region: SNc; smart00318 349102006606 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 349102006607 Catalytic site; other site 349102006608 choline dehydrogenase; Validated; Region: PRK02106 349102006609 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102006610 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349102006611 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 349102006612 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349102006613 NAD(P) binding site [chemical binding]; other site 349102006614 catalytic residues [active] 349102006615 transcriptional regulator BetI; Validated; Region: PRK00767 349102006616 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102006617 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 349102006618 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 349102006619 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 349102006620 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 349102006621 dimer interface [polypeptide binding]; other site 349102006622 conserved gate region; other site 349102006623 putative PBP binding loops; other site 349102006624 ABC-ATPase subunit interface; other site 349102006625 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 349102006626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102006627 Walker A/P-loop; other site 349102006628 ATP binding site [chemical binding]; other site 349102006629 Q-loop/lid; other site 349102006630 ABC transporter signature motif; other site 349102006631 Walker B; other site 349102006632 D-loop; other site 349102006633 H-loop/switch region; other site 349102006634 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 349102006635 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 349102006636 active site 349102006637 interdomain interaction site; other site 349102006638 putative metal-binding site [ion binding]; other site 349102006639 nucleotide binding site [chemical binding]; other site 349102006640 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 349102006641 domain I; other site 349102006642 DNA binding groove [nucleotide binding] 349102006643 phosphate binding site [ion binding]; other site 349102006644 domain II; other site 349102006645 domain III; other site 349102006646 nucleotide binding site [chemical binding]; other site 349102006647 catalytic site [active] 349102006648 domain IV; other site 349102006649 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349102006650 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 349102006651 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 349102006652 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 349102006653 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 349102006654 DNA protecting protein DprA; Region: dprA; TIGR00732 349102006655 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349102006656 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 349102006657 Walker A/P-loop; other site 349102006658 ATP binding site [chemical binding]; other site 349102006659 Q-loop/lid; other site 349102006660 ABC transporter signature motif; other site 349102006661 Walker B; other site 349102006662 D-loop; other site 349102006663 H-loop/switch region; other site 349102006664 Cobalt transport protein; Region: CbiQ; cl00463 349102006665 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 349102006666 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 349102006667 FAD binding site [chemical binding]; other site 349102006668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102006669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102006670 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 349102006671 putative dimerization interface [polypeptide binding]; other site 349102006672 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 349102006673 Phosphate transporter family; Region: PHO4; pfam01384 349102006674 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349102006675 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 349102006676 active site 349102006677 dimerization interface [polypeptide binding]; other site 349102006678 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 349102006679 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 349102006680 Proline dehydrogenase; Region: Pro_dh; pfam01619 349102006681 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 349102006682 Glutamate binding site [chemical binding]; other site 349102006683 NAD binding site [chemical binding]; other site 349102006684 catalytic residues [active] 349102006685 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102006686 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 349102006687 dimerization interface [polypeptide binding]; other site 349102006688 putative DNA binding site [nucleotide binding]; other site 349102006689 putative Zn2+ binding site [ion binding]; other site 349102006690 AsnC family; Region: AsnC_trans_reg; pfam01037 349102006691 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 349102006692 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102006693 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102006694 metal binding site [ion binding]; metal-binding site 349102006695 active site 349102006696 I-site; other site 349102006697 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349102006698 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 349102006699 putative ligand binding site [chemical binding]; other site 349102006700 putative NAD binding site [chemical binding]; other site 349102006701 catalytic site [active] 349102006702 Carbonic anhydrase; Region: Pro_CA; smart00947 349102006703 active site clefts [active] 349102006704 zinc binding site [ion binding]; other site 349102006705 dimer interface [polypeptide binding]; other site 349102006706 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 349102006707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102006708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102006709 metal binding site [ion binding]; metal-binding site 349102006710 active site 349102006711 I-site; other site 349102006712 Heme NO binding; Region: HNOB; pfam07700 349102006713 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 349102006714 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349102006715 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 349102006716 motif II; other site 349102006717 response regulator PleD; Reviewed; Region: pleD; PRK09581 349102006718 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 349102006719 active site 349102006720 phosphorylation site [posttranslational modification] 349102006721 intermolecular recognition site; other site 349102006722 dimerization interface [polypeptide binding]; other site 349102006723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102006724 metal binding site [ion binding]; metal-binding site 349102006725 active site 349102006726 I-site; other site 349102006727 Heavy-metal resistance; Region: Metal_resist; pfam13801 349102006728 dimer interface [polypeptide binding]; other site 349102006729 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 349102006730 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102006731 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 349102006732 DNA binding residues [nucleotide binding] 349102006733 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 349102006734 Ca2+ binding site [ion binding]; other site 349102006735 Protein of unknown function (DUF983); Region: DUF983; pfam06170 349102006736 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 349102006737 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 349102006738 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349102006739 active site 349102006740 catalytic tetrad [active] 349102006741 Uncharacterized conserved protein [Function unknown]; Region: COG4544 349102006742 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 349102006743 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 349102006744 active site 349102006745 HIGH motif; other site 349102006746 KMSKS motif; other site 349102006747 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 349102006748 tRNA binding surface [nucleotide binding]; other site 349102006749 anticodon binding site; other site 349102006750 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349102006751 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102006752 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 349102006753 ligand binding site [chemical binding]; other site 349102006754 flexible hinge region; other site 349102006755 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 349102006756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102006757 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349102006758 Walker A/P-loop; other site 349102006759 ATP binding site [chemical binding]; other site 349102006760 Q-loop/lid; other site 349102006761 ABC transporter signature motif; other site 349102006762 Walker B; other site 349102006763 D-loop; other site 349102006764 H-loop/switch region; other site 349102006765 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 349102006766 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 349102006767 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349102006768 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 349102006769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102006770 catalytic residue [active] 349102006771 Yip1 domain; Region: Yip1; pfam04893 349102006772 FeS assembly protein SufD; Region: sufD; TIGR01981 349102006773 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 349102006774 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 349102006775 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 349102006776 Walker A/P-loop; other site 349102006777 ATP binding site [chemical binding]; other site 349102006778 Q-loop/lid; other site 349102006779 ABC transporter signature motif; other site 349102006780 Walker B; other site 349102006781 D-loop; other site 349102006782 H-loop/switch region; other site 349102006783 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 349102006784 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 349102006785 putative ABC transporter; Region: ycf24; CHL00085 349102006786 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 349102006787 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 349102006788 catalytic residue [active] 349102006789 Transcriptional regulator; Region: Rrf2; cl17282 349102006790 Rrf2 family protein; Region: rrf2_super; TIGR00738 349102006791 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349102006792 HD domain; Region: HD_3; pfam13023 349102006793 isocitrate dehydrogenase; Validated; Region: PRK08299 349102006794 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349102006795 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349102006796 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 349102006797 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 349102006798 G1 box; other site 349102006799 putative GEF interaction site [polypeptide binding]; other site 349102006800 GTP/Mg2+ binding site [chemical binding]; other site 349102006801 Switch I region; other site 349102006802 G2 box; other site 349102006803 G3 box; other site 349102006804 Switch II region; other site 349102006805 G4 box; other site 349102006806 G5 box; other site 349102006807 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 349102006808 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 349102006809 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 349102006810 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 349102006811 putative active site [active] 349102006812 putative dimer interface [polypeptide binding]; other site 349102006813 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 349102006814 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 349102006815 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 349102006816 motif 1; other site 349102006817 active site 349102006818 motif 2; other site 349102006819 motif 3; other site 349102006820 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 349102006821 recombinase A; Provisional; Region: recA; PRK09354 349102006822 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 349102006823 hexamer interface [polypeptide binding]; other site 349102006824 Walker A motif; other site 349102006825 ATP binding site [chemical binding]; other site 349102006826 Walker B motif; other site 349102006827 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349102006828 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 349102006829 dimer interface [polypeptide binding]; other site 349102006830 phosphorylation site [posttranslational modification] 349102006831 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 349102006832 ATP binding site [chemical binding]; other site 349102006833 Mg2+ binding site [ion binding]; other site 349102006834 G-X-G motif; other site 349102006835 Response regulator receiver domain; Region: Response_reg; pfam00072 349102006836 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 349102006837 active site 349102006838 phosphorylation site [posttranslational modification] 349102006839 intermolecular recognition site; other site 349102006840 dimerization interface [polypeptide binding]; other site 349102006841 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 349102006842 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 349102006843 S-adenosylmethionine binding site [chemical binding]; other site 349102006844 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349102006845 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 349102006846 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 349102006847 RES domain; Region: RES; smart00953 349102006848 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 349102006849 hypothetical protein; Provisional; Region: PRK14013 349102006850 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349102006851 Protein export membrane protein; Region: SecD_SecF; cl14618 349102006852 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102006853 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 349102006854 E3 interaction surface; other site 349102006855 lipoyl attachment site [posttranslational modification]; other site 349102006856 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 349102006857 Cation efflux family; Region: Cation_efflux; cl00316 349102006858 putative protease; Provisional; Region: PRK15447 349102006859 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 349102006860 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 349102006861 Peptidase family U32; Region: Peptidase_U32; pfam01136 349102006862 SCP-2 sterol transfer family; Region: SCP2; cl01225 349102006863 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 349102006864 Flavoprotein; Region: Flavoprotein; pfam02441 349102006865 Predicted dehydrogenase [General function prediction only]; Region: COG0579 349102006866 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102006867 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 349102006868 gating phenylalanine in ion channel; other site 349102006869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 349102006870 Predicted kinase [General function prediction only]; Region: COG0645 349102006871 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 349102006872 active site 349102006873 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349102006874 putative catalytic site [active] 349102006875 putative metal binding site [ion binding]; other site 349102006876 putative phosphate binding site [ion binding]; other site 349102006877 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 349102006878 putative active site [active] 349102006879 catalytic site [active] 349102006880 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 349102006881 PLD-like domain; Region: PLDc_2; pfam13091 349102006882 putative active site [active] 349102006883 catalytic site [active] 349102006884 Cytochrome C' Region: Cytochrom_C_2; pfam01322 349102006885 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 349102006886 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 349102006887 intersubunit interface [polypeptide binding]; other site 349102006888 active site 349102006889 Zn2+ binding site [ion binding]; other site 349102006890 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 349102006891 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 349102006892 Hemerythrin-like domain; Region: Hr-like; cd12108 349102006893 Fe binding site [ion binding]; other site 349102006894 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349102006895 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102006896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102006897 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 349102006898 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 349102006899 motif 1; other site 349102006900 dimer interface [polypeptide binding]; other site 349102006901 active site 349102006902 motif 2; other site 349102006903 motif 3; other site 349102006904 elongation factor P; Validated; Region: PRK00529 349102006905 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349102006906 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 349102006907 RNA binding site [nucleotide binding]; other site 349102006908 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 349102006909 RNA binding site [nucleotide binding]; other site 349102006910 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 349102006911 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349102006912 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349102006913 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 349102006914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102006915 NAD(P) binding site [chemical binding]; other site 349102006916 active site 349102006917 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 349102006918 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 349102006919 DctM-like transporters; Region: DctM; pfam06808 349102006920 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 349102006921 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 349102006922 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102006923 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 349102006924 glucuronate isomerase; Reviewed; Region: PRK02925 349102006925 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 349102006926 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102006927 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102006928 DNA-binding site [nucleotide binding]; DNA binding site 349102006929 FCD domain; Region: FCD; pfam07729 349102006930 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 349102006931 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349102006932 substrate binding site [chemical binding]; other site 349102006933 ATP binding site [chemical binding]; other site 349102006934 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102006935 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102006936 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 349102006937 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 349102006938 active site 349102006939 substrate binding site [chemical binding]; other site 349102006940 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 349102006941 active site residue [active] 349102006942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102006943 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 349102006944 active site 349102006945 phosphorylation site [posttranslational modification] 349102006946 intermolecular recognition site; other site 349102006947 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 349102006948 DNA binding residues [nucleotide binding] 349102006949 dimerization interface [polypeptide binding]; other site 349102006950 PAS fold; Region: PAS_4; pfam08448 349102006951 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 349102006952 PAS domain; Region: PAS_9; pfam13426 349102006953 putative active site [active] 349102006954 heme pocket [chemical binding]; other site 349102006955 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 349102006956 dimer interface [polypeptide binding]; other site 349102006957 phosphorylation site [posttranslational modification] 349102006958 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 349102006959 ATP binding site [chemical binding]; other site 349102006960 Mg2+ binding site [ion binding]; other site 349102006961 G-X-G motif; other site 349102006962 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 349102006963 active site 349102006964 phosphorylation site [posttranslational modification] 349102006965 intermolecular recognition site; other site 349102006966 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 349102006967 active site 349102006968 catalytic residues [active] 349102006969 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 349102006970 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 349102006971 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102006972 NAD binding site [chemical binding]; other site 349102006973 putative substrate binding site 2 [chemical binding]; other site 349102006974 putative substrate binding site 1 [chemical binding]; other site 349102006975 active site 349102006976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 349102006977 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 349102006978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 349102006979 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 349102006980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 349102006981 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 349102006982 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349102006983 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 349102006984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102006985 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102006986 NAD(P) binding site [chemical binding]; other site 349102006987 active site 349102006988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102006989 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102006990 NAD(P) binding site [chemical binding]; other site 349102006991 active site 349102006992 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349102006993 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 349102006994 putative NAD(P) binding site [chemical binding]; other site 349102006995 catalytic Zn binding site [ion binding]; other site 349102006996 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349102006997 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349102006998 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349102006999 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 349102007000 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 349102007001 putative DNA binding site [nucleotide binding]; other site 349102007002 putative homodimer interface [polypeptide binding]; other site 349102007003 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 349102007004 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 349102007005 NAD(P) binding site [chemical binding]; other site 349102007006 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 349102007007 COQ9; Region: COQ9; pfam08511 349102007008 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 349102007009 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 349102007010 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 349102007011 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 349102007012 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 349102007013 S-adenosylmethionine binding site [chemical binding]; other site 349102007014 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102007015 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 349102007016 dimerization interface [polypeptide binding]; other site 349102007017 putative DNA binding site [nucleotide binding]; other site 349102007018 putative Zn2+ binding site [ion binding]; other site 349102007019 AsnC family; Region: AsnC_trans_reg; pfam01037 349102007020 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 349102007021 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 349102007022 hexamer interface [polypeptide binding]; other site 349102007023 ligand binding site [chemical binding]; other site 349102007024 putative active site [active] 349102007025 NAD(P) binding site [chemical binding]; other site 349102007026 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 349102007027 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 349102007028 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 349102007029 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349102007030 catalytic residues [active] 349102007031 argininosuccinate lyase; Provisional; Region: PRK00855 349102007032 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 349102007033 active sites [active] 349102007034 tetramer interface [polypeptide binding]; other site 349102007035 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 349102007036 diaminopimelate decarboxylase; Region: lysA; TIGR01048 349102007037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 349102007038 active site 349102007039 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349102007040 substrate binding site [chemical binding]; other site 349102007041 catalytic residues [active] 349102007042 dimer interface [polypeptide binding]; other site 349102007043 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 349102007044 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 349102007045 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 349102007046 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349102007047 Walker A/P-loop; other site 349102007048 ATP binding site [chemical binding]; other site 349102007049 Q-loop/lid; other site 349102007050 ABC transporter signature motif; other site 349102007051 Walker B; other site 349102007052 D-loop; other site 349102007053 H-loop/switch region; other site 349102007054 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 349102007055 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349102007056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349102007057 putative acyl-acceptor binding pocket; other site 349102007058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102007059 Coenzyme A binding pocket [chemical binding]; other site 349102007060 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 349102007061 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 349102007062 Walker A motif; other site 349102007063 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 349102007064 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 349102007065 GTP binding site; other site 349102007066 AzlC protein; Region: AzlC; pfam03591 349102007067 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 349102007068 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 349102007069 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349102007070 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349102007071 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349102007072 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349102007073 active site 349102007074 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349102007075 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 349102007076 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 349102007077 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 349102007078 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 349102007079 putative acyltransferase; Provisional; Region: PRK05790 349102007080 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 349102007081 dimer interface [polypeptide binding]; other site 349102007082 active site 349102007083 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 349102007084 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 349102007085 NAD(P) binding site [chemical binding]; other site 349102007086 homotetramer interface [polypeptide binding]; other site 349102007087 homodimer interface [polypeptide binding]; other site 349102007088 active site 349102007089 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 349102007090 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 349102007091 S-adenosylmethionine binding site [chemical binding]; other site 349102007092 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349102007093 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349102007094 substrate binding pocket [chemical binding]; other site 349102007095 chain length determination region; other site 349102007096 substrate-Mg2+ binding site; other site 349102007097 catalytic residues [active] 349102007098 aspartate-rich region 1; other site 349102007099 active site lid residues [active] 349102007100 aspartate-rich region 2; other site 349102007101 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 349102007102 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 349102007103 TPR repeat; Region: TPR_11; pfam13414 349102007104 binding surface 349102007105 TPR motif; other site 349102007106 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 349102007107 binding surface 349102007108 TPR motif; other site 349102007109 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 349102007110 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102007111 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 349102007112 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 349102007113 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 349102007114 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 349102007115 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349102007116 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 349102007117 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 349102007118 Hint domain; Region: Hint_2; pfam13403 349102007119 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 349102007120 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 349102007121 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 349102007122 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 349102007123 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 349102007124 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 349102007125 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 349102007126 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 349102007127 active site 349102007128 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349102007129 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 349102007130 homodimer interface [polypeptide binding]; other site 349102007131 substrate-cofactor binding pocket; other site 349102007132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102007133 catalytic residue [active] 349102007134 N-formylglutamate amidohydrolase; Region: FGase; cl01522 349102007135 pyruvate kinase; Provisional; Region: PRK06247 349102007136 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 349102007137 domain interfaces; other site 349102007138 active site 349102007139 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 349102007140 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 349102007141 23S rRNA binding site [nucleotide binding]; other site 349102007142 L21 binding site [polypeptide binding]; other site 349102007143 L13 binding site [polypeptide binding]; other site 349102007144 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 349102007145 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 349102007146 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 349102007147 dimer interface [polypeptide binding]; other site 349102007148 motif 1; other site 349102007149 active site 349102007150 motif 2; other site 349102007151 motif 3; other site 349102007152 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 349102007153 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 349102007154 putative tRNA-binding site [nucleotide binding]; other site 349102007155 B3/4 domain; Region: B3_4; pfam03483 349102007156 tRNA synthetase B5 domain; Region: B5; smart00874 349102007157 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 349102007158 dimer interface [polypeptide binding]; other site 349102007159 motif 1; other site 349102007160 motif 3; other site 349102007161 motif 2; other site 349102007162 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 349102007163 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 349102007164 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349102007165 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 349102007166 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 349102007167 metal binding site [ion binding]; metal-binding site 349102007168 Pantoate-beta-alanine ligase; Region: PanC; cd00560 349102007169 pantoate--beta-alanine ligase; Region: panC; TIGR00018 349102007170 active site 349102007171 ATP-binding site [chemical binding]; other site 349102007172 pantoate-binding site; other site 349102007173 HXXH motif; other site 349102007174 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 349102007175 oligomerization interface [polypeptide binding]; other site 349102007176 active site 349102007177 metal binding site [ion binding]; metal-binding site 349102007178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349102007179 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102007180 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349102007181 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349102007182 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 349102007183 active site 349102007184 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 349102007185 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 349102007186 catalytic loop [active] 349102007187 iron binding site [ion binding]; other site 349102007188 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349102007189 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349102007190 Walker A/P-loop; other site 349102007191 ATP binding site [chemical binding]; other site 349102007192 Q-loop/lid; other site 349102007193 ABC transporter signature motif; other site 349102007194 Walker B; other site 349102007195 D-loop; other site 349102007196 H-loop/switch region; other site 349102007197 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349102007198 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 349102007199 dimer interface [polypeptide binding]; other site 349102007200 conserved gate region; other site 349102007201 putative PBP binding loops; other site 349102007202 ABC-ATPase subunit interface; other site 349102007203 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 349102007204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349102007205 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 349102007206 putative PBP binding loops; other site 349102007207 dimer interface [polypeptide binding]; other site 349102007208 ABC-ATPase subunit interface; other site 349102007209 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 349102007210 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102007211 substrate binding pocket [chemical binding]; other site 349102007212 membrane-bound complex binding site; other site 349102007213 hinge residues; other site 349102007214 ATP12 chaperone protein; Region: ATP12; cl02228 349102007215 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349102007216 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 349102007217 RNA binding surface [nucleotide binding]; other site 349102007218 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349102007219 active site 349102007220 recombination factor protein RarA; Reviewed; Region: PRK13342 349102007221 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 349102007222 ATP binding site [chemical binding]; other site 349102007223 Walker A motif; other site 349102007224 Walker B motif; other site 349102007225 arginine finger; other site 349102007226 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 349102007227 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349102007228 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102007229 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 349102007230 protein binding site [polypeptide binding]; other site 349102007231 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 349102007232 protein binding site [polypeptide binding]; other site 349102007233 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349102007234 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 349102007235 DNA binding residues [nucleotide binding] 349102007236 dimerization interface [polypeptide binding]; other site 349102007237 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 349102007238 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 349102007239 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 349102007240 alphaNTD - beta interaction site [polypeptide binding]; other site 349102007241 alphaNTD homodimer interface [polypeptide binding]; other site 349102007242 alphaNTD - beta' interaction site [polypeptide binding]; other site 349102007243 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 349102007244 30S ribosomal protein S11; Validated; Region: PRK05309 349102007245 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 349102007246 30S ribosomal protein S13; Region: bact_S13; TIGR03631 349102007247 adenylate kinase; Reviewed; Region: adk; PRK00279 349102007248 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 349102007249 AMP-binding site [chemical binding]; other site 349102007250 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349102007251 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 349102007252 SecY translocase; Region: SecY; pfam00344 349102007253 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 349102007254 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 349102007255 23S rRNA binding site [nucleotide binding]; other site 349102007256 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 349102007257 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 349102007258 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 349102007259 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 349102007260 5S rRNA interface [nucleotide binding]; other site 349102007261 23S rRNA interface [nucleotide binding]; other site 349102007262 L5 interface [polypeptide binding]; other site 349102007263 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 349102007264 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349102007265 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349102007266 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 349102007267 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 349102007268 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 349102007269 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 349102007270 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 349102007271 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 349102007272 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 349102007273 RNA binding site [nucleotide binding]; other site 349102007274 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 349102007275 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 349102007276 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 349102007277 23S rRNA interface [nucleotide binding]; other site 349102007278 putative translocon interaction site; other site 349102007279 signal recognition particle (SRP54) interaction site; other site 349102007280 L23 interface [polypeptide binding]; other site 349102007281 trigger factor interaction site; other site 349102007282 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 349102007283 5S rRNA interface [nucleotide binding]; other site 349102007284 23S rRNA interface [nucleotide binding]; other site 349102007285 putative antibiotic binding site [chemical binding]; other site 349102007286 L25 interface [polypeptide binding]; other site 349102007287 L27 interface [polypeptide binding]; other site 349102007288 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 349102007289 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 349102007290 G-X-X-G motif; other site 349102007291 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 349102007292 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 349102007293 putative translocon binding site; other site 349102007294 protein-rRNA interface [nucleotide binding]; other site 349102007295 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 349102007296 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 349102007297 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 349102007298 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 349102007299 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 349102007300 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 349102007301 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 349102007302 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 349102007303 elongation factor Tu; Reviewed; Region: PRK00049 349102007304 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349102007305 G1 box; other site 349102007306 GEF interaction site [polypeptide binding]; other site 349102007307 GTP/Mg2+ binding site [chemical binding]; other site 349102007308 Switch I region; other site 349102007309 G2 box; other site 349102007310 G3 box; other site 349102007311 Switch II region; other site 349102007312 G4 box; other site 349102007313 G5 box; other site 349102007314 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 349102007315 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 349102007316 Antibiotic Binding Site [chemical binding]; other site 349102007317 elongation factor G; Reviewed; Region: PRK00007 349102007318 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 349102007319 G1 box; other site 349102007320 putative GEF interaction site [polypeptide binding]; other site 349102007321 GTP/Mg2+ binding site [chemical binding]; other site 349102007322 Switch I region; other site 349102007323 G2 box; other site 349102007324 G3 box; other site 349102007325 Switch II region; other site 349102007326 G4 box; other site 349102007327 G5 box; other site 349102007328 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 349102007329 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 349102007330 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 349102007331 30S ribosomal protein S7; Validated; Region: PRK05302 349102007332 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 349102007333 S17 interaction site [polypeptide binding]; other site 349102007334 S8 interaction site; other site 349102007335 16S rRNA interaction site [nucleotide binding]; other site 349102007336 streptomycin interaction site [chemical binding]; other site 349102007337 23S rRNA interaction site [nucleotide binding]; other site 349102007338 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 349102007339 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349102007340 EamA-like transporter family; Region: EamA; pfam00892 349102007341 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 349102007342 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 349102007343 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 349102007344 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 349102007345 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 349102007346 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349102007347 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 349102007348 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 349102007349 DNA binding site [nucleotide binding] 349102007350 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 349102007351 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 349102007352 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 349102007353 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 349102007354 RPB11 interaction site [polypeptide binding]; other site 349102007355 RPB12 interaction site [polypeptide binding]; other site 349102007356 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 349102007357 RPB3 interaction site [polypeptide binding]; other site 349102007358 RPB1 interaction site [polypeptide binding]; other site 349102007359 RPB11 interaction site [polypeptide binding]; other site 349102007360 RPB10 interaction site [polypeptide binding]; other site 349102007361 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 349102007362 core dimer interface [polypeptide binding]; other site 349102007363 peripheral dimer interface [polypeptide binding]; other site 349102007364 L10 interface [polypeptide binding]; other site 349102007365 L11 interface [polypeptide binding]; other site 349102007366 putative EF-Tu interaction site [polypeptide binding]; other site 349102007367 putative EF-G interaction site [polypeptide binding]; other site 349102007368 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 349102007369 23S rRNA interface [nucleotide binding]; other site 349102007370 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 349102007371 mRNA/rRNA interface [nucleotide binding]; other site 349102007372 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 349102007373 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 349102007374 23S rRNA interface [nucleotide binding]; other site 349102007375 L7/L12 interface [polypeptide binding]; other site 349102007376 putative thiostrepton binding site; other site 349102007377 L25 interface [polypeptide binding]; other site 349102007378 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 349102007379 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 349102007380 putative homodimer interface [polypeptide binding]; other site 349102007381 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 349102007382 heterodimer interface [polypeptide binding]; other site 349102007383 homodimer interface [polypeptide binding]; other site 349102007384 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 349102007385 elongation factor Tu; Reviewed; Region: PRK00049 349102007386 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349102007387 G1 box; other site 349102007388 GEF interaction site [polypeptide binding]; other site 349102007389 GTP/Mg2+ binding site [chemical binding]; other site 349102007390 Switch I region; other site 349102007391 G2 box; other site 349102007392 G3 box; other site 349102007393 Switch II region; other site 349102007394 G4 box; other site 349102007395 G5 box; other site 349102007396 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 349102007397 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 349102007398 Antibiotic Binding Site [chemical binding]; other site 349102007399 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 349102007400 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 349102007401 CAP-like domain; other site 349102007402 active site 349102007403 primary dimer interface [polypeptide binding]; other site 349102007404 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349102007405 Bacterial SH3 domain; Region: SH3_3; pfam08239 349102007406 short chain dehydrogenase; Provisional; Region: PRK05993 349102007407 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 349102007408 NADP binding site [chemical binding]; other site 349102007409 active site 349102007410 steroid binding site; other site 349102007411 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 349102007412 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 349102007413 Ligand binding site [chemical binding]; other site 349102007414 Electron transfer flavoprotein domain; Region: ETF; pfam01012 349102007415 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 349102007416 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 349102007417 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 349102007418 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 349102007419 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349102007420 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349102007421 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 349102007422 dimerization domain swap beta strand [polypeptide binding]; other site 349102007423 regulatory protein interface [polypeptide binding]; other site 349102007424 active site 349102007425 regulatory phosphorylation site [posttranslational modification]; other site 349102007426 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 349102007427 active pocket/dimerization site; other site 349102007428 active site 349102007429 phosphorylation site [posttranslational modification] 349102007430 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 349102007431 AAA domain; Region: AAA_18; pfam13238 349102007432 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 349102007433 Hpr binding site; other site 349102007434 active site 349102007435 homohexamer subunit interaction site [polypeptide binding]; other site 349102007436 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 349102007437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102007438 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 349102007439 dimer interface [polypeptide binding]; other site 349102007440 phosphorylation site [posttranslational modification] 349102007441 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 349102007442 ATP binding site [chemical binding]; other site 349102007443 Mg2+ binding site [ion binding]; other site 349102007444 G-X-G motif; other site 349102007445 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 349102007446 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 349102007447 active site 349102007448 substrate-binding site [chemical binding]; other site 349102007449 metal-binding site [ion binding] 349102007450 ATP binding site [chemical binding]; other site 349102007451 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349102007452 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349102007453 active site 349102007454 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 349102007455 Recombination protein O N terminal; Region: RecO_N; pfam11967 349102007456 Recombination protein O C terminal; Region: RecO_C; pfam02565 349102007457 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 349102007458 GTPase Era; Reviewed; Region: era; PRK00089 349102007459 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 349102007460 G1 box; other site 349102007461 GTP/Mg2+ binding site [chemical binding]; other site 349102007462 Switch I region; other site 349102007463 G2 box; other site 349102007464 Switch II region; other site 349102007465 G3 box; other site 349102007466 G4 box; other site 349102007467 G5 box; other site 349102007468 KH domain; Region: KH_2; pfam07650 349102007469 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 349102007470 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 349102007471 dimerization interface [polypeptide binding]; other site 349102007472 active site 349102007473 metal binding site [ion binding]; metal-binding site 349102007474 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 349102007475 dsRNA binding site [nucleotide binding]; other site 349102007476 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 349102007477 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 349102007478 Catalytic site [active] 349102007479 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 349102007480 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 349102007481 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 349102007482 active site 349102007483 hydrophilic channel; other site 349102007484 dimerization interface [polypeptide binding]; other site 349102007485 catalytic residues [active] 349102007486 active site lid [active] 349102007487 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 349102007488 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349102007489 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349102007490 Zn2+ binding site [ion binding]; other site 349102007491 Mg2+ binding site [ion binding]; other site 349102007492 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349102007493 synthetase active site [active] 349102007494 NTP binding site [chemical binding]; other site 349102007495 metal binding site [ion binding]; metal-binding site 349102007496 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 349102007497 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 349102007498 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 349102007499 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 349102007500 catalytic center binding site [active] 349102007501 ATP binding site [chemical binding]; other site 349102007502 Uncharacterized conserved protein [Function unknown]; Region: COG1432 349102007503 LabA_like proteins; Region: LabA; cd10911 349102007504 putative metal binding site [ion binding]; other site 349102007505 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 349102007506 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 349102007507 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 349102007508 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349102007509 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349102007510 DNA binding site [nucleotide binding] 349102007511 domain linker motif; other site 349102007512 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 349102007513 putative dimerization interface [polypeptide binding]; other site 349102007514 putative ligand binding site [chemical binding]; other site 349102007515 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349102007516 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 349102007517 tandem repeat interface [polypeptide binding]; other site 349102007518 oligomer interface [polypeptide binding]; other site 349102007519 active site residues [active] 349102007520 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 349102007521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349102007522 Coenzyme A binding pocket [chemical binding]; other site 349102007523 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 349102007524 active site 349102007525 oxyanion hole [active] 349102007526 catalytic triad [active] 349102007527 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 349102007528 active site 349102007529 catalytic residues [active] 349102007530 enoyl-CoA hydratase; Provisional; Region: PRK05862 349102007531 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 349102007532 substrate binding site [chemical binding]; other site 349102007533 oxyanion hole (OAH) forming residues; other site 349102007534 trimer interface [polypeptide binding]; other site 349102007535 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 349102007536 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 349102007537 DNA binding site [nucleotide binding] 349102007538 catalytic residue [active] 349102007539 H2TH interface [polypeptide binding]; other site 349102007540 putative catalytic residues [active] 349102007541 turnover-facilitating residue; other site 349102007542 intercalation triad [nucleotide binding]; other site 349102007543 8OG recognition residue [nucleotide binding]; other site 349102007544 putative reading head residues; other site 349102007545 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 349102007546 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 349102007547 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 349102007548 S-adenosylmethionine binding site [chemical binding]; other site 349102007549 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 349102007550 ABC1 family; Region: ABC1; cl17513 349102007551 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 349102007552 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 349102007553 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 349102007554 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 349102007555 Rod binding protein; Region: Rod-binding; cl01626 349102007556 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 349102007557 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 349102007558 Walker A motif; other site 349102007559 ATP binding site [chemical binding]; other site 349102007560 Walker B motif; other site 349102007561 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 349102007562 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102007563 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 349102007564 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102007565 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102007566 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 349102007567 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 349102007568 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 349102007569 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102007570 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 349102007571 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 349102007572 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102007573 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102007574 SAF-like; Region: SAF_2; pfam13144 349102007575 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 349102007576 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 349102007577 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 349102007578 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 349102007579 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102007580 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 349102007581 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 349102007582 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 349102007583 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 349102007584 FHIPEP family; Region: FHIPEP; pfam00771 349102007585 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 349102007586 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102007587 xylose isomerase; Provisional; Region: PRK05474 349102007588 xylose isomerase; Region: xylose_isom_A; TIGR02630 349102007589 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 349102007590 N- and C-terminal domain interface [polypeptide binding]; other site 349102007591 active site 349102007592 MgATP binding site [chemical binding]; other site 349102007593 catalytic site [active] 349102007594 metal binding site [ion binding]; metal-binding site 349102007595 xylulose binding site [chemical binding]; other site 349102007596 homodimer interface [polypeptide binding]; other site 349102007597 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349102007598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102007599 Walker A/P-loop; other site 349102007600 ATP binding site [chemical binding]; other site 349102007601 Q-loop/lid; other site 349102007602 ABC transporter signature motif; other site 349102007603 Walker B; other site 349102007604 D-loop; other site 349102007605 H-loop/switch region; other site 349102007606 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 349102007607 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349102007608 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349102007609 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102007610 TM-ABC transporter signature motif; other site 349102007611 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 349102007612 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 349102007613 putative ligand binding site [chemical binding]; other site 349102007614 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 349102007615 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349102007616 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349102007617 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 349102007618 Surface antigen; Region: Bac_surface_Ag; pfam01103 349102007619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 349102007620 Family of unknown function (DUF490); Region: DUF490; pfam04357 349102007621 Family of unknown function (DUF490); Region: DUF490; pfam04357 349102007622 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 349102007623 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 349102007624 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 349102007625 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 349102007626 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349102007627 NAD(P) binding site [chemical binding]; other site 349102007628 homodimer interface [polypeptide binding]; other site 349102007629 substrate binding site [chemical binding]; other site 349102007630 active site 349102007631 Bacterial sugar transferase; Region: Bac_transf; cl00939 349102007632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102007633 NAD(P) binding site [chemical binding]; other site 349102007634 active site 349102007635 MarR family; Region: MarR_2; pfam12802 349102007636 nitrilase; Region: PLN02798 349102007637 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 349102007638 putative active site [active] 349102007639 catalytic triad [active] 349102007640 dimer interface [polypeptide binding]; other site 349102007641 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 349102007642 GSH binding site [chemical binding]; other site 349102007643 catalytic residues [active] 349102007644 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 349102007645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 349102007646 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 349102007647 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 349102007648 ferrochelatase; Reviewed; Region: hemH; PRK00035 349102007649 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 349102007650 C-terminal domain interface [polypeptide binding]; other site 349102007651 active site 349102007652 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 349102007653 active site 349102007654 N-terminal domain interface [polypeptide binding]; other site 349102007655 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102007656 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 349102007657 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102007658 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 349102007659 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349102007660 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102007661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102007662 Walker A/P-loop; other site 349102007663 ATP binding site [chemical binding]; other site 349102007664 Q-loop/lid; other site 349102007665 ABC transporter signature motif; other site 349102007666 Walker B; other site 349102007667 D-loop; other site 349102007668 H-loop/switch region; other site 349102007669 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349102007670 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102007671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102007672 Walker A/P-loop; other site 349102007673 ATP binding site [chemical binding]; other site 349102007674 Q-loop/lid; other site 349102007675 ABC transporter signature motif; other site 349102007676 Walker B; other site 349102007677 D-loop; other site 349102007678 H-loop/switch region; other site 349102007679 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 349102007680 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349102007681 active site 349102007682 NTP binding site [chemical binding]; other site 349102007683 metal binding triad [ion binding]; metal-binding site 349102007684 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 349102007685 putative active site [active] 349102007686 putative CoA binding site [chemical binding]; other site 349102007687 nudix motif; other site 349102007688 metal binding site [ion binding]; metal-binding site 349102007689 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 349102007690 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 349102007691 dimerization interface [polypeptide binding]; other site 349102007692 domain crossover interface; other site 349102007693 redox-dependent activation switch; other site 349102007694 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 349102007695 nudix motif; other site 349102007696 Response regulator receiver domain; Region: Response_reg; pfam00072 349102007697 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 349102007698 active site 349102007699 phosphorylation site [posttranslational modification] 349102007700 intermolecular recognition site; other site 349102007701 dimerization interface [polypeptide binding]; other site 349102007702 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 349102007703 Hpt domain; Region: Hpt; pfam01627 349102007704 putative binding surface; other site 349102007705 active site 349102007706 threonine dehydratase; Validated; Region: PRK08639 349102007707 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 349102007708 tetramer interface [polypeptide binding]; other site 349102007709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102007710 catalytic residue [active] 349102007711 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349102007712 argininosuccinate synthase; Provisional; Region: PRK13820 349102007713 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 349102007714 ANP binding site [chemical binding]; other site 349102007715 Substrate Binding Site II [chemical binding]; other site 349102007716 Substrate Binding Site I [chemical binding]; other site 349102007717 Protein of unknown function (DUF533); Region: DUF533; pfam04391 349102007718 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 349102007719 putative metal binding site [ion binding]; other site 349102007720 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349102007721 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 349102007722 homodimer interface [polypeptide binding]; other site 349102007723 substrate-cofactor binding pocket; other site 349102007724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102007725 catalytic residue [active] 349102007726 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 349102007727 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349102007728 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349102007729 putative NAD(P) binding site [chemical binding]; other site 349102007730 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 349102007731 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 349102007732 MutS domain I; Region: MutS_I; pfam01624 349102007733 MutS domain II; Region: MutS_II; pfam05188 349102007734 MutS domain III; Region: MutS_III; pfam05192 349102007735 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 349102007736 Walker A/P-loop; other site 349102007737 ATP binding site [chemical binding]; other site 349102007738 Q-loop/lid; other site 349102007739 ABC transporter signature motif; other site 349102007740 Walker B; other site 349102007741 D-loop; other site 349102007742 H-loop/switch region; other site 349102007743 GrpE; Region: GrpE; pfam01025 349102007744 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 349102007745 dimer interface [polypeptide binding]; other site 349102007746 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 349102007747 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 349102007748 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 349102007749 ribonuclease PH; Reviewed; Region: rph; PRK00173 349102007750 Ribonuclease PH; Region: RNase_PH_bact; cd11362 349102007751 hexamer interface [polypeptide binding]; other site 349102007752 active site 349102007753 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 349102007754 active site 349102007755 dimerization interface [polypeptide binding]; other site 349102007756 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 349102007757 homotrimer interaction site [polypeptide binding]; other site 349102007758 putative active site [active] 349102007759 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 349102007760 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 349102007761 FeS/SAM binding site; other site 349102007762 HemN C-terminal domain; Region: HemN_C; pfam06969 349102007763 Protein of unknown function (DUF454); Region: DUF454; pfam04304 349102007764 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 349102007765 ParB-like nuclease domain; Region: ParB; smart00470 349102007766 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349102007767 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 349102007768 P-loop; other site 349102007769 Magnesium ion binding site [ion binding]; other site 349102007770 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 349102007771 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 349102007772 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 349102007773 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 349102007774 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 349102007775 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 349102007776 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 349102007777 trmE is a tRNA modification GTPase; Region: trmE; cd04164 349102007778 G1 box; other site 349102007779 GTP/Mg2+ binding site [chemical binding]; other site 349102007780 Switch I region; other site 349102007781 G2 box; other site 349102007782 Switch II region; other site 349102007783 G3 box; other site 349102007784 G4 box; other site 349102007785 G5 box; other site 349102007786 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 349102007787 transcription termination factor Rho; Provisional; Region: rho; PRK09376 349102007788 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 349102007789 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 349102007790 RNA binding site [nucleotide binding]; other site 349102007791 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 349102007792 multimer interface [polypeptide binding]; other site 349102007793 Walker A motif; other site 349102007794 ATP binding site [chemical binding]; other site 349102007795 Walker B motif; other site 349102007796 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 349102007797 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 349102007798 active site 349102007799 dimer interface [polypeptide binding]; other site 349102007800 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 349102007801 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 349102007802 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 349102007803 shikimate binding site; other site 349102007804 NAD(P) binding site [chemical binding]; other site 349102007805 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 349102007806 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 349102007807 CoA-binding site [chemical binding]; other site 349102007808 ATP-binding [chemical binding]; other site 349102007809 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 349102007810 active site 349102007811 catalytic site [active] 349102007812 substrate binding site [chemical binding]; other site 349102007813 Preprotein translocase subunit SecB; Region: SecB; pfam02556 349102007814 SecA binding site; other site 349102007815 Preprotein binding site; other site 349102007816 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 349102007817 Tim44-like domain; Region: Tim44; pfam04280 349102007818 MltA specific insert domain; Region: MltA; smart00925 349102007819 3D domain; Region: 3D; pfam06725 349102007820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 349102007821 Smr domain; Region: Smr; pfam01713 349102007822 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_13; cd08354 349102007823 putative metal binding site [ion binding]; other site 349102007824 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349102007825 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349102007826 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349102007827 DNA binding site [nucleotide binding] 349102007828 domain linker motif; other site 349102007829 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 349102007830 dimerization interface [polypeptide binding]; other site 349102007831 ligand binding site [chemical binding]; other site 349102007832 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349102007833 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 349102007834 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349102007835 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349102007836 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349102007837 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349102007838 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349102007839 Walker A/P-loop; other site 349102007840 ATP binding site [chemical binding]; other site 349102007841 Q-loop/lid; other site 349102007842 ABC transporter signature motif; other site 349102007843 Walker B; other site 349102007844 D-loop; other site 349102007845 H-loop/switch region; other site 349102007846 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349102007847 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102007848 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349102007849 TM-ABC transporter signature motif; other site 349102007850 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 349102007851 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 349102007852 putative ligand binding site [chemical binding]; other site 349102007853 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 349102007854 pseudoazurin; Region: pseudoazurin; TIGR02375 349102007855 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 349102007856 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 349102007857 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 349102007858 FMN binding site [chemical binding]; other site 349102007859 substrate binding site [chemical binding]; other site 349102007860 putative catalytic residue [active] 349102007861 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 349102007862 transmembrane helices; other site 349102007863 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349102007864 TrkA-C domain; Region: TrkA_C; pfam02080 349102007865 TrkA-C domain; Region: TrkA_C; pfam02080 349102007866 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 349102007867 propionate/acetate kinase; Provisional; Region: PRK12379 349102007868 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 349102007869 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 349102007870 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 349102007871 dimer interaction site [polypeptide binding]; other site 349102007872 substrate-binding tunnel; other site 349102007873 active site 349102007874 catalytic site [active] 349102007875 substrate binding site [chemical binding]; other site 349102007876 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 349102007877 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 349102007878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102007879 NAD(P) binding site [chemical binding]; other site 349102007880 active site 349102007881 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 349102007882 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 349102007883 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 349102007884 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349102007885 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 349102007886 catalytic site [active] 349102007887 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349102007888 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 349102007889 CsbD-like; Region: CsbD; cl17424 349102007890 HAMP domain; Region: HAMP; pfam00672 349102007891 dimerization interface [polypeptide binding]; other site 349102007892 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102007893 Histidine kinase; Region: HisKA_2; pfam07568 349102007894 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 349102007895 ATP binding site [chemical binding]; other site 349102007896 Mg2+ binding site [ion binding]; other site 349102007897 G-X-G motif; other site 349102007898 RNA polymerase sigma factor; Provisional; Region: PRK12546 349102007899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102007900 two-component response regulator; Provisional; Region: PRK09191 349102007901 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 349102007902 active site 349102007903 phosphorylation site [posttranslational modification] 349102007904 intermolecular recognition site; other site 349102007905 dimerization interface [polypeptide binding]; other site 349102007906 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102007907 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 349102007908 ligand binding site [chemical binding]; other site 349102007909 flexible hinge region; other site 349102007910 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 349102007911 putative switch regulator; other site 349102007912 non-specific DNA interactions [nucleotide binding]; other site 349102007913 DNA binding site [nucleotide binding] 349102007914 sequence specific DNA binding site [nucleotide binding]; other site 349102007915 putative cAMP binding site [chemical binding]; other site 349102007916 dimerization interface [polypeptide binding]; other site 349102007917 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 349102007918 putative active cleft [active] 349102007919 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 349102007920 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 349102007921 motif II; other site 349102007922 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 349102007923 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 349102007924 motif II; other site 349102007925 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 349102007926 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 349102007927 Walker A motif; other site 349102007928 ATP binding site [chemical binding]; other site 349102007929 Walker B motif; other site 349102007930 arginine finger; other site 349102007931 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 349102007932 multimerization interface [polypeptide binding]; other site 349102007933 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 349102007934 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 349102007935 homodimer interface [polypeptide binding]; other site 349102007936 active site 349102007937 heterodimer interface [polypeptide binding]; other site 349102007938 catalytic residue [active] 349102007939 metal binding site [ion binding]; metal-binding site 349102007940 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 349102007941 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 349102007942 intersubunit interface [polypeptide binding]; other site 349102007943 active site 349102007944 zinc binding site [ion binding]; other site 349102007945 Na+ binding site [ion binding]; other site 349102007946 phosphoribulokinase; Provisional; Region: PRK15453 349102007947 active site 349102007948 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 349102007949 AMP binding site [chemical binding]; other site 349102007950 metal binding site [ion binding]; metal-binding site 349102007951 active site 349102007952 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102007953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102007954 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 349102007955 dimerization interface [polypeptide binding]; other site 349102007956 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349102007957 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 349102007958 Walker A/P-loop; other site 349102007959 ATP binding site [chemical binding]; other site 349102007960 Q-loop/lid; other site 349102007961 ABC transporter signature motif; other site 349102007962 Walker B; other site 349102007963 D-loop; other site 349102007964 H-loop/switch region; other site 349102007965 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349102007966 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 349102007967 Walker A/P-loop; other site 349102007968 ATP binding site [chemical binding]; other site 349102007969 Q-loop/lid; other site 349102007970 ABC transporter signature motif; other site 349102007971 Walker B; other site 349102007972 D-loop; other site 349102007973 H-loop/switch region; other site 349102007974 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102007975 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 349102007976 TM-ABC transporter signature motif; other site 349102007977 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102007978 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 349102007979 ligand binding site [chemical binding]; other site 349102007980 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 349102007981 active site 349102007982 DNA binding site [nucleotide binding] 349102007983 Int/Topo IB signature motif; other site 349102007984 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 349102007985 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 349102007986 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 349102007987 aldehyde dehydrogenase family 7 member; Region: PLN02315 349102007988 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 349102007989 tetrameric interface [polypeptide binding]; other site 349102007990 NAD binding site [chemical binding]; other site 349102007991 catalytic residues [active] 349102007992 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349102007993 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 349102007994 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 349102007995 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 349102007996 tetramer interface [polypeptide binding]; other site 349102007997 TPP-binding site [chemical binding]; other site 349102007998 heterodimer interface [polypeptide binding]; other site 349102007999 phosphorylation loop region [posttranslational modification] 349102008000 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 349102008001 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 349102008002 alpha subunit interface [polypeptide binding]; other site 349102008003 TPP binding site [chemical binding]; other site 349102008004 heterodimer interface [polypeptide binding]; other site 349102008005 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349102008006 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 349102008007 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349102008008 FAD binding site [chemical binding]; other site 349102008009 substrate binding pocket [chemical binding]; other site 349102008010 catalytic base [active] 349102008011 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 349102008012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102008013 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 349102008014 dimerization interface [polypeptide binding]; other site 349102008015 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 349102008016 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 349102008017 active site 349102008018 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 349102008019 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 349102008020 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 349102008021 TPR motif; other site 349102008022 binding surface 349102008023 PAP2 superfamily; Region: PAP2; pfam01569 349102008024 active site 349102008025 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 349102008026 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 349102008027 active site 349102008028 catalytic residues [active] 349102008029 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 349102008030 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 349102008031 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 349102008032 ligand binding site [chemical binding]; other site 349102008033 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 349102008034 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349102008035 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102008036 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 349102008037 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349102008038 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 349102008039 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 349102008040 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 349102008041 PAS domain; Region: PAS; smart00091 349102008042 PAS domain; Region: PAS_9; pfam13426 349102008043 putative active site [active] 349102008044 heme pocket [chemical binding]; other site 349102008045 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 349102008046 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 349102008047 putative active site [active] 349102008048 heme pocket [chemical binding]; other site 349102008049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102008050 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 349102008051 dimer interface [polypeptide binding]; other site 349102008052 phosphorylation site [posttranslational modification] 349102008053 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 349102008054 ATP binding site [chemical binding]; other site 349102008055 Mg2+ binding site [ion binding]; other site 349102008056 G-X-G motif; other site 349102008057 Response regulator receiver domain; Region: Response_reg; pfam00072 349102008058 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 349102008059 active site 349102008060 phosphorylation site [posttranslational modification] 349102008061 intermolecular recognition site; other site 349102008062 dimerization interface [polypeptide binding]; other site 349102008063 Response regulator receiver domain; Region: Response_reg; pfam00072 349102008064 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 349102008065 active site 349102008066 phosphorylation site [posttranslational modification] 349102008067 intermolecular recognition site; other site 349102008068 dimerization interface [polypeptide binding]; other site 349102008069 HTH DNA binding domain; Region: HTH_13; pfam11972 349102008070 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 349102008071 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 349102008072 CutC family; Region: CutC; cl01218 349102008073 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 349102008074 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 349102008075 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 349102008076 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 349102008077 Uncharacterized conserved protein [Function unknown]; Region: COG3334 349102008078 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 349102008079 flagellar motor protein MotA; Validated; Region: PRK09110 349102008080 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349102008081 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349102008082 active site 349102008083 tetramer interface; other site 349102008084 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 349102008085 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 349102008086 Ligand binding site; other site 349102008087 oligomer interface; other site 349102008088 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349102008089 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 349102008090 active site 349102008091 ribosome maturation protein RimP; Reviewed; Region: PRK00092 349102008092 Sm and related proteins; Region: Sm_like; cl00259 349102008093 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 349102008094 putative oligomer interface [polypeptide binding]; other site 349102008095 putative RNA binding site [nucleotide binding]; other site 349102008096 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 349102008097 NusA N-terminal domain; Region: NusA_N; pfam08529 349102008098 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 349102008099 RNA binding site [nucleotide binding]; other site 349102008100 homodimer interface [polypeptide binding]; other site 349102008101 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 349102008102 G-X-X-G motif; other site 349102008103 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 349102008104 G-X-X-G motif; other site 349102008105 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 349102008106 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349102008107 hypothetical protein; Provisional; Region: PRK09190 349102008108 Protein of unknown function (DUF448); Region: DUF448; pfam04296 349102008109 putative RNA binding cleft [nucleotide binding]; other site 349102008110 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 349102008111 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 349102008112 translation initiation factor IF-2; Region: IF-2; TIGR00487 349102008113 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 349102008114 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 349102008115 G1 box; other site 349102008116 putative GEF interaction site [polypeptide binding]; other site 349102008117 GTP/Mg2+ binding site [chemical binding]; other site 349102008118 Switch I region; other site 349102008119 G2 box; other site 349102008120 G3 box; other site 349102008121 Switch II region; other site 349102008122 G4 box; other site 349102008123 G5 box; other site 349102008124 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 349102008125 Translation-initiation factor 2; Region: IF-2; pfam11987 349102008126 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 349102008127 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 349102008128 active site 349102008129 8-oxo-dGMP binding site [chemical binding]; other site 349102008130 nudix motif; other site 349102008131 metal binding site [ion binding]; metal-binding site 349102008132 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 349102008133 heterotetramer interface [polypeptide binding]; other site 349102008134 active site pocket [active] 349102008135 cleavage site 349102008136 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 349102008137 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 349102008138 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 349102008139 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 349102008140 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 349102008141 nucleotide binding region [chemical binding]; other site 349102008142 ATP-binding site [chemical binding]; other site 349102008143 SEC-C motif; Region: SEC-C; pfam02810 349102008144 PBP superfamily domain; Region: PBP_like_2; cl17296 349102008145 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102008146 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102008147 ligand binding site [chemical binding]; other site 349102008148 hypothetical protein; Reviewed; Region: PRK00024 349102008149 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 349102008150 MPN+ (JAMM) motif; other site 349102008151 Zinc-binding site [ion binding]; other site 349102008152 chaperone protein DnaJ; Provisional; Region: PRK10767 349102008153 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 349102008154 HSP70 interaction site [polypeptide binding]; other site 349102008155 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 349102008156 substrate binding site [polypeptide binding]; other site 349102008157 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 349102008158 Zn binding sites [ion binding]; other site 349102008159 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 349102008160 dimer interface [polypeptide binding]; other site 349102008161 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 349102008162 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 349102008163 nucleotide binding site [chemical binding]; other site 349102008164 NEF interaction site [polypeptide binding]; other site 349102008165 SBD interface [polypeptide binding]; other site 349102008166 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 349102008167 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 349102008168 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 349102008169 S-adenosylmethionine binding site [chemical binding]; other site 349102008170 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 349102008171 active site 349102008172 phosphorylation site [posttranslational modification] 349102008173 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 349102008174 30S subunit binding site; other site 349102008175 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 349102008176 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 349102008177 Walker A/P-loop; other site 349102008178 ATP binding site [chemical binding]; other site 349102008179 Q-loop/lid; other site 349102008180 ABC transporter signature motif; other site 349102008181 Walker B; other site 349102008182 D-loop; other site 349102008183 H-loop/switch region; other site 349102008184 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 349102008185 OstA-like protein; Region: OstA; pfam03968 349102008186 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 349102008187 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 349102008188 putative active site [active] 349102008189 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 349102008190 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 349102008191 catalytic site [active] 349102008192 putative active site [active] 349102008193 putative substrate binding site [chemical binding]; other site 349102008194 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 349102008195 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349102008196 putative NAD(P) binding site [chemical binding]; other site 349102008197 active site 349102008198 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 349102008199 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 349102008200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102008201 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102008202 Uncharacterized conserved protein [Function unknown]; Region: COG3791 349102008203 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 349102008204 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 349102008205 active site 349102008206 dimer interface [polypeptide binding]; other site 349102008207 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 349102008208 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 349102008209 active site 349102008210 FMN binding site [chemical binding]; other site 349102008211 substrate binding site [chemical binding]; other site 349102008212 3Fe-4S cluster binding site [ion binding]; other site 349102008213 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 349102008214 domain interface; other site 349102008215 Transglycosylase; Region: Transgly; cl17702 349102008216 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 349102008217 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349102008218 C-terminal domain interface [polypeptide binding]; other site 349102008219 GSH binding site (G-site) [chemical binding]; other site 349102008220 dimer interface [polypeptide binding]; other site 349102008221 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 349102008222 N-terminal domain interface [polypeptide binding]; other site 349102008223 dimer interface [polypeptide binding]; other site 349102008224 substrate binding pocket (H-site) [chemical binding]; other site 349102008225 epoxyqueuosine reductase; Region: TIGR00276 349102008226 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 349102008227 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349102008228 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 349102008229 homodimer interface [polypeptide binding]; other site 349102008230 substrate-cofactor binding pocket; other site 349102008231 catalytic residue [active] 349102008232 MarR family; Region: MarR_2; pfam12802 349102008233 osmolarity response regulator; Provisional; Region: ompR; PRK09468 349102008234 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 349102008235 active site 349102008236 phosphorylation site [posttranslational modification] 349102008237 intermolecular recognition site; other site 349102008238 dimerization interface [polypeptide binding]; other site 349102008239 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 349102008240 DNA binding site [nucleotide binding] 349102008241 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349102008242 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 349102008243 putative active site [active] 349102008244 Zn binding site [ion binding]; other site 349102008245 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 349102008246 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349102008247 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349102008248 substrate binding pocket [chemical binding]; other site 349102008249 chain length determination region; other site 349102008250 substrate-Mg2+ binding site; other site 349102008251 catalytic residues [active] 349102008252 aspartate-rich region 1; other site 349102008253 active site lid residues [active] 349102008254 aspartate-rich region 2; other site 349102008255 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 349102008256 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 349102008257 TPP-binding site; other site 349102008258 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 349102008259 PYR/PP interface [polypeptide binding]; other site 349102008260 dimer interface [polypeptide binding]; other site 349102008261 TPP binding site [chemical binding]; other site 349102008262 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349102008263 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 349102008264 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102008265 putative NAD(P) binding site [chemical binding]; other site 349102008266 AMP nucleosidase; Provisional; Region: PRK08292 349102008267 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 349102008268 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 349102008269 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 349102008270 IHF dimer interface [polypeptide binding]; other site 349102008271 IHF - DNA interface [nucleotide binding]; other site 349102008272 EamA-like transporter family; Region: EamA; pfam00892 349102008273 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 349102008274 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 349102008275 Tetramer interface [polypeptide binding]; other site 349102008276 active site 349102008277 FMN-binding site [chemical binding]; other site 349102008278 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 349102008279 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 349102008280 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 349102008281 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 349102008282 dimer interface [polypeptide binding]; other site 349102008283 conserved gate region; other site 349102008284 putative PBP binding loops; other site 349102008285 ABC-ATPase subunit interface; other site 349102008286 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 349102008287 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102008288 Walker A/P-loop; other site 349102008289 ATP binding site [chemical binding]; other site 349102008290 Q-loop/lid; other site 349102008291 ABC transporter signature motif; other site 349102008292 Walker B; other site 349102008293 D-loop; other site 349102008294 H-loop/switch region; other site 349102008295 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 349102008296 cytochrome b; Provisional; Region: CYTB; MTH00191 349102008297 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 349102008298 intrachain domain interface; other site 349102008299 interchain domain interface [polypeptide binding]; other site 349102008300 heme bH binding site [chemical binding]; other site 349102008301 Qi binding site; other site 349102008302 heme bL binding site [chemical binding]; other site 349102008303 Qo binding site; other site 349102008304 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 349102008305 interchain domain interface [polypeptide binding]; other site 349102008306 intrachain domain interface; other site 349102008307 Qi binding site; other site 349102008308 Qo binding site; other site 349102008309 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 349102008310 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 349102008311 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 349102008312 [2Fe-2S] cluster binding site [ion binding]; other site 349102008313 putative glutathione S-transferase; Provisional; Region: PRK10357 349102008314 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 349102008315 putative C-terminal domain interface [polypeptide binding]; other site 349102008316 putative GSH binding site (G-site) [chemical binding]; other site 349102008317 putative dimer interface [polypeptide binding]; other site 349102008318 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 349102008319 dimer interface [polypeptide binding]; other site 349102008320 N-terminal domain interface [polypeptide binding]; other site 349102008321 putative substrate binding pocket (H-site) [chemical binding]; other site 349102008322 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 349102008323 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 349102008324 DNA polymerase IV; Provisional; Region: PRK02794 349102008325 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 349102008326 active site 349102008327 DNA binding site [nucleotide binding] 349102008328 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 349102008329 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 349102008330 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 349102008331 active site 349102008332 dimer interface [polypeptide binding]; other site 349102008333 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349102008334 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349102008335 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 349102008336 Clp amino terminal domain; Region: Clp_N; pfam02861 349102008337 Clp amino terminal domain; Region: Clp_N; pfam02861 349102008338 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 349102008339 Walker A motif; other site 349102008340 ATP binding site [chemical binding]; other site 349102008341 Walker B motif; other site 349102008342 arginine finger; other site 349102008343 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 349102008344 Walker A motif; other site 349102008345 ATP binding site [chemical binding]; other site 349102008346 Walker B motif; other site 349102008347 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 349102008348 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 349102008349 Fasciclin domain; Region: Fasciclin; pfam02469 349102008350 TMAO/DMSO reductase; Reviewed; Region: PRK05363 349102008351 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 349102008352 Moco binding site; other site 349102008353 metal coordination site [ion binding]; other site 349102008354 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 349102008355 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 349102008356 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 349102008357 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 349102008358 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 349102008359 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 349102008360 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102008361 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102008362 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 349102008363 Predicted membrane protein [Function unknown]; Region: COG4325 349102008364 Predicted membrane protein [Function unknown]; Region: COG2323 349102008365 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 349102008366 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 349102008367 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 349102008368 dimer interface [polypeptide binding]; other site 349102008369 conserved gate region; other site 349102008370 ABC-ATPase subunit interface; other site 349102008371 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102008372 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 349102008373 Walker A/P-loop; other site 349102008374 ATP binding site [chemical binding]; other site 349102008375 Q-loop/lid; other site 349102008376 ABC transporter signature motif; other site 349102008377 Walker B; other site 349102008378 D-loop; other site 349102008379 H-loop/switch region; other site 349102008380 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 349102008381 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 349102008382 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 349102008383 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 349102008384 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 349102008385 dimer interface [polypeptide binding]; other site 349102008386 active site 349102008387 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 349102008388 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 349102008389 substrate binding site [chemical binding]; other site 349102008390 oxyanion hole (OAH) forming residues; other site 349102008391 trimer interface [polypeptide binding]; other site 349102008392 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349102008393 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349102008394 hypothetical protein; Provisional; Region: PRK07036 349102008395 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 349102008396 inhibitor-cofactor binding pocket; inhibition site 349102008397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102008398 catalytic residue [active] 349102008399 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349102008400 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 349102008401 NAD(P) binding site [chemical binding]; other site 349102008402 catalytic residues [active] 349102008403 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349102008404 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102008405 acyl-activating enzyme (AAE) consensus motif; other site 349102008406 AMP binding site [chemical binding]; other site 349102008407 active site 349102008408 CoA binding site [chemical binding]; other site 349102008409 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 349102008410 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102008411 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 349102008412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102008413 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 349102008414 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 349102008415 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349102008416 active site 349102008417 Zn binding site [ion binding]; other site 349102008418 putative amidase; Provisional; Region: PRK06169 349102008419 Amidase; Region: Amidase; pfam01425 349102008420 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 349102008421 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349102008422 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 349102008423 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349102008424 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349102008425 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 349102008426 dimer interface [polypeptide binding]; other site 349102008427 conserved gate region; other site 349102008428 ABC-ATPase subunit interface; other site 349102008429 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349102008430 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 349102008431 dimer interface [polypeptide binding]; other site 349102008432 conserved gate region; other site 349102008433 putative PBP binding loops; other site 349102008434 ABC-ATPase subunit interface; other site 349102008435 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349102008436 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102008437 Walker A/P-loop; other site 349102008438 ATP binding site [chemical binding]; other site 349102008439 Q-loop/lid; other site 349102008440 ABC transporter signature motif; other site 349102008441 Walker B; other site 349102008442 D-loop; other site 349102008443 H-loop/switch region; other site 349102008444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102008445 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102008446 Walker A/P-loop; other site 349102008447 ATP binding site [chemical binding]; other site 349102008448 Q-loop/lid; other site 349102008449 ABC transporter signature motif; other site 349102008450 Walker B; other site 349102008451 D-loop; other site 349102008452 H-loop/switch region; other site 349102008453 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102008454 Ion transport protein; Region: Ion_trans; pfam00520 349102008455 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 349102008456 putative ADP-binding pocket [chemical binding]; other site 349102008457 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 349102008458 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 349102008459 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 349102008460 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 349102008461 catalytic loop [active] 349102008462 iron binding site [ion binding]; other site 349102008463 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 349102008464 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 349102008465 [4Fe-4S] binding site [ion binding]; other site 349102008466 molybdopterin cofactor binding site; other site 349102008467 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 349102008468 molybdopterin cofactor binding site; other site 349102008469 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 349102008470 putative dimer interface [polypeptide binding]; other site 349102008471 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 349102008472 SLBB domain; Region: SLBB; pfam10531 349102008473 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 349102008474 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 349102008475 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349102008476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102008477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102008478 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 349102008479 dimerization interface [polypeptide binding]; other site 349102008480 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 349102008481 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349102008482 tandem repeat interface [polypeptide binding]; other site 349102008483 oligomer interface [polypeptide binding]; other site 349102008484 active site residues [active] 349102008485 short chain dehydrogenase; Provisional; Region: PRK09134 349102008486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102008487 NAD(P) binding site [chemical binding]; other site 349102008488 active site 349102008489 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 349102008490 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 349102008491 GIY-YIG motif/motif A; other site 349102008492 active site 349102008493 catalytic site [active] 349102008494 putative DNA binding site [nucleotide binding]; other site 349102008495 metal binding site [ion binding]; metal-binding site 349102008496 UvrB/uvrC motif; Region: UVR; pfam02151 349102008497 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 349102008498 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349102008499 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 349102008500 MoaE interaction surface [polypeptide binding]; other site 349102008501 MoeB interaction surface [polypeptide binding]; other site 349102008502 thiocarboxylated glycine; other site 349102008503 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 349102008504 MoaE homodimer interface [polypeptide binding]; other site 349102008505 MoaD interaction [polypeptide binding]; other site 349102008506 active site residues [active] 349102008507 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 349102008508 catalytic core [active] 349102008509 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 349102008510 feedback inhibition sensing region; other site 349102008511 homohexameric interface [polypeptide binding]; other site 349102008512 nucleotide binding site [chemical binding]; other site 349102008513 N-acetyl-L-glutamate binding site [chemical binding]; other site 349102008514 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349102008515 classical (c) SDRs; Region: SDR_c; cd05233 349102008516 NAD(P) binding site [chemical binding]; other site 349102008517 active site 349102008518 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 349102008519 G1 box; other site 349102008520 GTP/Mg2+ binding site [chemical binding]; other site 349102008521 Switch I region; other site 349102008522 G2 box; other site 349102008523 G3 box; other site 349102008524 Switch II region; other site 349102008525 G4 box; other site 349102008526 G5 box; other site 349102008527 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 349102008528 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 349102008529 MOSC domain; Region: MOSC; pfam03473 349102008530 membrane protein insertase; Provisional; Region: PRK01318 349102008531 Predicted coiled-coil domain-containing protein (DUF2360); Region: DUF2360; pfam10152 349102008532 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 349102008533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102008534 metal binding site [ion binding]; metal-binding site 349102008535 active site 349102008536 I-site; other site 349102008537 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 349102008538 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 349102008539 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 349102008540 Ligand Binding Site [chemical binding]; other site 349102008541 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 349102008542 DNA binding site [nucleotide binding] 349102008543 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 349102008544 excinuclease ABC subunit B; Provisional; Region: PRK05298 349102008545 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 349102008546 ATP binding site [chemical binding]; other site 349102008547 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 349102008548 nucleotide binding region [chemical binding]; other site 349102008549 ATP-binding site [chemical binding]; other site 349102008550 Ultra-violet resistance protein B; Region: UvrB; pfam12344 349102008551 UvrB/uvrC motif; Region: UVR; pfam02151 349102008552 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 349102008553 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 349102008554 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 349102008555 dimer interface [polypeptide binding]; other site 349102008556 active site 349102008557 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349102008558 catalytic residues [active] 349102008559 substrate binding site [chemical binding]; other site 349102008560 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 349102008561 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 349102008562 NAD(P) binding pocket [chemical binding]; other site 349102008563 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 349102008564 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102008565 Walker A/P-loop; other site 349102008566 ATP binding site [chemical binding]; other site 349102008567 Q-loop/lid; other site 349102008568 ABC transporter signature motif; other site 349102008569 Walker B; other site 349102008570 D-loop; other site 349102008571 H-loop/switch region; other site 349102008572 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102008573 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102008574 Walker A/P-loop; other site 349102008575 ATP binding site [chemical binding]; other site 349102008576 Q-loop/lid; other site 349102008577 ABC transporter signature motif; other site 349102008578 Walker B; other site 349102008579 D-loop; other site 349102008580 H-loop/switch region; other site 349102008581 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102008582 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349102008583 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 349102008584 dimer interface [polypeptide binding]; other site 349102008585 conserved gate region; other site 349102008586 ABC-ATPase subunit interface; other site 349102008587 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 349102008588 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 349102008589 dimer interface [polypeptide binding]; other site 349102008590 conserved gate region; other site 349102008591 putative PBP binding loops; other site 349102008592 ABC-ATPase subunit interface; other site 349102008593 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349102008594 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349102008595 peptide binding site [polypeptide binding]; other site 349102008596 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349102008597 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102008598 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 349102008599 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349102008600 ATP binding site [chemical binding]; other site 349102008601 Mg++ binding site [ion binding]; other site 349102008602 motif III; other site 349102008603 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 349102008604 nucleotide binding region [chemical binding]; other site 349102008605 ATP-binding site [chemical binding]; other site 349102008606 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 349102008607 RNA binding site [nucleotide binding]; other site 349102008608 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 349102008609 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 349102008610 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 349102008611 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 349102008612 Uncharacterized conserved protein [Function unknown]; Region: COG2835 349102008613 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349102008614 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 349102008615 hypothetical protein; Provisional; Region: PRK06102 349102008616 Amidase; Region: Amidase; cl11426 349102008617 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 349102008618 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 349102008619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102008620 homodimer interface [polypeptide binding]; other site 349102008621 catalytic residue [active] 349102008622 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 349102008623 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 349102008624 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 349102008625 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 349102008626 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 349102008627 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 349102008628 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 349102008629 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102008630 catalytic residue [active] 349102008631 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 349102008632 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 349102008633 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 349102008634 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 349102008635 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 349102008636 ATP binding site [chemical binding]; other site 349102008637 Mg2+ binding site [ion binding]; other site 349102008638 G-X-G motif; other site 349102008639 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 349102008640 anti sigma factor interaction site; other site 349102008641 regulatory phosphorylation site [posttranslational modification]; other site 349102008642 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 349102008643 GAF domain; Region: GAF_2; pfam13185 349102008644 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349102008645 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349102008646 active site 349102008647 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 349102008648 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349102008649 NAD binding site [chemical binding]; other site 349102008650 catalytic residues [active] 349102008651 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 349102008652 HemY protein N-terminus; Region: HemY_N; pfam07219 349102008653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 349102008654 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 349102008655 active site 349102008656 UGMP family protein; Validated; Region: PRK09604 349102008657 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 349102008658 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 349102008659 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349102008660 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 349102008661 YciI-like protein; Reviewed; Region: PRK12863 349102008662 EVE domain; Region: EVE; cl00728 349102008663 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 349102008664 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 349102008665 RNase E interface [polypeptide binding]; other site 349102008666 trimer interface [polypeptide binding]; other site 349102008667 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 349102008668 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 349102008669 RNase E interface [polypeptide binding]; other site 349102008670 trimer interface [polypeptide binding]; other site 349102008671 active site 349102008672 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 349102008673 putative nucleic acid binding region [nucleotide binding]; other site 349102008674 G-X-X-G motif; other site 349102008675 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 349102008676 RNA binding site [nucleotide binding]; other site 349102008677 domain interface; other site 349102008678 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 349102008679 16S/18S rRNA binding site [nucleotide binding]; other site 349102008680 S13e-L30e interaction site [polypeptide binding]; other site 349102008681 25S rRNA binding site [nucleotide binding]; other site 349102008682 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 349102008683 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349102008684 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 349102008685 dimer interface [polypeptide binding]; other site 349102008686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102008687 catalytic residue [active] 349102008688 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 349102008689 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 349102008690 RNA binding site [nucleotide binding]; other site 349102008691 active site 349102008692 Predicted periplasmic protein [Function unknown]; Region: COG3698 349102008693 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349102008694 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 349102008695 dihydrodipicolinate reductase; Provisional; Region: PRK00048 349102008696 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 349102008697 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 349102008698 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cd00447 349102008699 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 349102008700 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 349102008701 S-adenosylmethionine binding site [chemical binding]; other site 349102008702 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 349102008703 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 349102008704 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 349102008705 purine monophosphate binding site [chemical binding]; other site 349102008706 dimer interface [polypeptide binding]; other site 349102008707 putative catalytic residues [active] 349102008708 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 349102008709 lipoprotein signal peptidase; Provisional; Region: PRK14774 349102008710 lipoprotein signal peptidase; Provisional; Region: PRK14787 349102008711 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 349102008712 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349102008713 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349102008714 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349102008715 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349102008716 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349102008717 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 349102008718 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 349102008719 ATP binding site [chemical binding]; other site 349102008720 Mg2+ binding site [ion binding]; other site 349102008721 G-X-G motif; other site 349102008722 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 349102008723 ATP binding site [chemical binding]; other site 349102008724 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 349102008725 RmuC family; Region: RmuC; pfam02646 349102008726 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 349102008727 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 349102008728 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 349102008729 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102008730 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 349102008731 DNA binding residues [nucleotide binding] 349102008732 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 349102008733 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102008734 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 349102008735 MFS/sugar transport protein; Region: MFS_2; pfam13347 349102008736 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 349102008737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102008738 NAD(P) binding site [chemical binding]; other site 349102008739 active site 349102008740 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 349102008741 active site 349102008742 ligand binding site [chemical binding]; other site 349102008743 homodimer interface [polypeptide binding]; other site 349102008744 NAD(P) binding site [chemical binding]; other site 349102008745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102008746 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 349102008747 active site 349102008748 phosphorylation site [posttranslational modification] 349102008749 intermolecular recognition site; other site 349102008750 dimerization interface [polypeptide binding]; other site 349102008751 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 349102008752 DNA binding site [nucleotide binding] 349102008753 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 349102008754 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 349102008755 active site 349102008756 homotetramer interface [polypeptide binding]; other site 349102008757 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 349102008758 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 349102008759 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349102008760 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 349102008761 active site 349102008762 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 349102008763 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 349102008764 substrate binding site; other site 349102008765 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 349102008766 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 349102008767 Walker A motif; other site 349102008768 ATP binding site [chemical binding]; other site 349102008769 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 349102008770 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 349102008771 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 349102008772 active site 349102008773 HslU subunit interaction site [polypeptide binding]; other site 349102008774 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 349102008775 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349102008776 catalytic residues [active] 349102008777 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 349102008778 Part of AAA domain; Region: AAA_19; pfam13245 349102008779 Family description; Region: UvrD_C_2; pfam13538 349102008780 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 349102008781 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349102008782 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 349102008783 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 349102008784 Substrate binding site; other site 349102008785 metal-binding site 349102008786 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 349102008787 Phosphotransferase enzyme family; Region: APH; pfam01636 349102008788 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 349102008789 PAS fold; Region: PAS_7; pfam12860 349102008790 PAS fold; Region: PAS_7; pfam12860 349102008791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102008792 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 349102008793 dimer interface [polypeptide binding]; other site 349102008794 phosphorylation site [posttranslational modification] 349102008795 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 349102008796 ATP binding site [chemical binding]; other site 349102008797 Mg2+ binding site [ion binding]; other site 349102008798 G-X-G motif; other site 349102008799 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 349102008800 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 349102008801 Cu(I) binding site [ion binding]; other site 349102008802 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 349102008803 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 349102008804 active site 349102008805 phosphorylation site [posttranslational modification] 349102008806 intermolecular recognition site; other site 349102008807 dimerization interface [polypeptide binding]; other site 349102008808 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 349102008809 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102008810 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102008811 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102008812 K-box region; Region: K-box; pfam01486 349102008813 H-NS histone family; Region: Histone_HNS; pfam00816 349102008814 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 349102008815 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 349102008816 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 349102008817 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 349102008818 Ligand binding site; other site 349102008819 metal-binding site 349102008820 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 349102008821 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 349102008822 homotetramer interface [polypeptide binding]; other site 349102008823 ligand binding site [chemical binding]; other site 349102008824 catalytic site [active] 349102008825 NAD binding site [chemical binding]; other site 349102008826 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 349102008827 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 349102008828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102008829 catalytic residue [active] 349102008830 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 349102008831 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 349102008832 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 349102008833 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 349102008834 active site 349102008835 DNA binding site [nucleotide binding] 349102008836 Int/Topo IB signature motif; other site 349102008837 catalytic residues [active] 349102008838 Transmembrane secretion effector; Region: MFS_3; pfam05977 349102008839 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 349102008840 Transposase [DNA replication, recombination, and repair]; Region: COG5421 349102008841 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 349102008842 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 349102008843 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 349102008844 putative active site [active] 349102008845 putative substrate binding site [chemical binding]; other site 349102008846 putative cosubstrate binding site; other site 349102008847 catalytic site [active] 349102008848 aminotransferase; Validated; Region: PRK07678 349102008849 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 349102008850 inhibitor-cofactor binding pocket; inhibition site 349102008851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102008852 catalytic residue [active] 349102008853 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349102008854 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 349102008855 dimer interface [polypeptide binding]; other site 349102008856 conserved gate region; other site 349102008857 putative PBP binding loops; other site 349102008858 ABC-ATPase subunit interface; other site 349102008859 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349102008860 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349102008861 Walker A/P-loop; other site 349102008862 ATP binding site [chemical binding]; other site 349102008863 Q-loop/lid; other site 349102008864 ABC transporter signature motif; other site 349102008865 Walker B; other site 349102008866 D-loop; other site 349102008867 H-loop/switch region; other site 349102008868 NMT1/THI5 like; Region: NMT1; pfam09084 349102008869 Protein of unknown function DUF72; Region: DUF72; pfam01904 349102008870 trehalose synthase; Region: treS_nterm; TIGR02456 349102008871 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 349102008872 active site 349102008873 catalytic site [active] 349102008874 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 349102008875 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349102008876 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349102008877 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 349102008878 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349102008879 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 349102008880 FeS/SAM binding site; other site 349102008881 phosphoglyceromutase; Provisional; Region: PRK05434 349102008882 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 349102008883 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 349102008884 Peptidase family M23; Region: Peptidase_M23; pfam01551 349102008885 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 349102008886 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 349102008887 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 349102008888 protein binding site [polypeptide binding]; other site 349102008889 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349102008890 Catalytic dyad [active] 349102008891 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 349102008892 putative active site [active] 349102008893 Ap4A binding site [chemical binding]; other site 349102008894 nudix motif; other site 349102008895 putative metal binding site [ion binding]; other site 349102008896 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 349102008897 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 349102008898 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 349102008899 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 349102008900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102008901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102008902 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 349102008903 putative effector binding pocket; other site 349102008904 dimerization interface [polypeptide binding]; other site 349102008905 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349102008906 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349102008907 ligand binding site [chemical binding]; other site 349102008908 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349102008909 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 349102008910 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 349102008911 putative MPT binding site; other site 349102008912 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 349102008913 active site 349102008914 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 349102008915 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 349102008916 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 349102008917 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349102008918 short chain dehydrogenase; Provisional; Region: PRK06701 349102008919 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 349102008920 NAD binding site [chemical binding]; other site 349102008921 metal binding site [ion binding]; metal-binding site 349102008922 active site 349102008923 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 349102008924 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 349102008925 substrate binding site [chemical binding]; other site 349102008926 oxyanion hole (OAH) forming residues; other site 349102008927 trimer interface [polypeptide binding]; other site 349102008928 short chain dehydrogenase; Provisional; Region: PRK07454 349102008929 classical (c) SDRs; Region: SDR_c; cd05233 349102008930 NAD(P) binding site [chemical binding]; other site 349102008931 active site 349102008932 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 349102008933 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 349102008934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102008935 active site 349102008936 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 349102008937 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349102008938 active site 349102008939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102008940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102008941 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 349102008942 dimerization interface [polypeptide binding]; other site 349102008943 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 349102008944 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 349102008945 motif II; other site 349102008946 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 349102008947 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 349102008948 S-adenosylmethionine binding site [chemical binding]; other site 349102008949 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 349102008950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102008951 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 349102008952 catalytic triad [active] 349102008953 dimer interface [polypeptide binding]; other site 349102008954 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 349102008955 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 349102008956 B12 binding site [chemical binding]; other site 349102008957 cobalt ligand [ion binding]; other site 349102008958 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 349102008959 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 349102008960 putative NAD(P) binding site [chemical binding]; other site 349102008961 AAA domain; Region: AAA_30; pfam13604 349102008962 Family description; Region: UvrD_C_2; pfam13538 349102008963 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102008964 AsnC family; Region: AsnC_trans_reg; pfam01037 349102008965 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 349102008966 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 349102008967 quinone interaction residues [chemical binding]; other site 349102008968 active site 349102008969 catalytic residues [active] 349102008970 FMN binding site [chemical binding]; other site 349102008971 substrate binding site [chemical binding]; other site 349102008972 Protein of unknown function (DUF952); Region: DUF952; pfam06108 349102008973 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349102008974 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 349102008975 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349102008976 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 349102008977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 349102008978 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 349102008979 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 349102008980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 349102008981 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349102008982 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 349102008983 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349102008984 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 349102008985 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349102008986 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349102008987 Walker A/P-loop; other site 349102008988 ATP binding site [chemical binding]; other site 349102008989 Q-loop/lid; other site 349102008990 ABC transporter signature motif; other site 349102008991 Walker B; other site 349102008992 D-loop; other site 349102008993 H-loop/switch region; other site 349102008994 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 349102008995 Imelysin; Region: Peptidase_M75; pfam09375 349102008996 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 349102008997 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 349102008998 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349102008999 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349102009000 heme binding site [chemical binding]; other site 349102009001 ferroxidase pore; other site 349102009002 ferroxidase diiron center [ion binding]; other site 349102009003 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349102009004 Imelysin; Region: Peptidase_M75; cl09159 349102009005 Hemin uptake protein hemP; Region: hemP; pfam10636 349102009006 Protein of unknown function (DUF533); Region: DUF533; pfam04391 349102009007 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 349102009008 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349102009009 Bacterial transcriptional regulator; Region: IclR; pfam01614 349102009010 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 349102009011 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349102009012 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 349102009013 ureidoglycolate hydrolase; Provisional; Region: PRK03606 349102009014 hypothetical protein; Provisional; Region: PRK11171 349102009015 Cupin domain; Region: Cupin_2; pfam07883 349102009016 Cupin domain; Region: Cupin_2; pfam07883 349102009017 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 349102009018 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 349102009019 active site 349102009020 catalytic site [active] 349102009021 tetramer interface [polypeptide binding]; other site 349102009022 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 349102009023 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 349102009024 active site 349102009025 homotetramer interface [polypeptide binding]; other site 349102009026 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 349102009027 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 349102009028 isocitrate dehydrogenase; Validated; Region: PRK08299 349102009029 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 349102009030 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 349102009031 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 349102009032 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349102009033 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102009034 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 349102009035 acyl-activating enzyme (AAE) consensus motif; other site 349102009036 acyl-activating enzyme (AAE) consensus motif; other site 349102009037 putative AMP binding site [chemical binding]; other site 349102009038 putative active site [active] 349102009039 putative CoA binding site [chemical binding]; other site 349102009040 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 349102009041 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 349102009042 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349102009043 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 349102009044 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 349102009045 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349102009046 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349102009047 Sensors of blue-light using FAD; Region: BLUF; pfam04940 349102009048 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 349102009049 putative active site [active] 349102009050 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349102009051 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 349102009052 putative active site [active] 349102009053 heme pocket [chemical binding]; other site 349102009054 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 349102009055 dimer interface [polypeptide binding]; other site 349102009056 phosphorylation site [posttranslational modification] 349102009057 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 349102009058 ATP binding site [chemical binding]; other site 349102009059 Mg2+ binding site [ion binding]; other site 349102009060 G-X-G motif; other site 349102009061 Response regulator receiver domain; Region: Response_reg; pfam00072 349102009062 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 349102009063 active site 349102009064 phosphorylation site [posttranslational modification] 349102009065 intermolecular recognition site; other site 349102009066 dimerization interface [polypeptide binding]; other site 349102009067 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349102009068 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349102009069 aminotransferase; Validated; Region: PRK07046 349102009070 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 349102009071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102009072 catalytic residue [active] 349102009073 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 349102009074 ATP-grasp domain; Region: ATP-grasp; pfam02222 349102009075 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 349102009076 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 349102009077 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 349102009078 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 349102009079 putative dimer interface [polypeptide binding]; other site 349102009080 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 349102009081 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 349102009082 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 349102009083 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 349102009084 Walker A motif; other site 349102009085 ATP binding site [chemical binding]; other site 349102009086 Walker B motif; other site 349102009087 arginine finger; other site 349102009088 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 349102009089 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 349102009090 dimerization interface [polypeptide binding]; other site 349102009091 metal binding site [ion binding]; metal-binding site 349102009092 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 349102009093 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 349102009094 putative molybdopterin cofactor binding site [chemical binding]; other site 349102009095 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 349102009096 putative molybdopterin cofactor binding site; other site 349102009097 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 349102009098 NAD+ synthetase; Region: nadE; TIGR00552 349102009099 Ligand Binding Site [chemical binding]; other site 349102009100 Competence-damaged protein; Region: CinA; pfam02464 349102009101 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 349102009102 MPT binding site; other site 349102009103 trimer interface [polypeptide binding]; other site 349102009104 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 349102009105 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 349102009106 NAD binding site [chemical binding]; other site 349102009107 catalytic Zn binding site [ion binding]; other site 349102009108 substrate binding site [chemical binding]; other site 349102009109 structural Zn binding site [ion binding]; other site 349102009110 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 349102009111 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102009112 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349102009113 active site 349102009114 catalytic residues [active] 349102009115 DNA binding site [nucleotide binding] 349102009116 Int/Topo IB signature motif; other site 349102009117 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 349102009118 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 349102009119 dimerization interface [polypeptide binding]; other site 349102009120 putative ATP binding site [chemical binding]; other site 349102009121 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 349102009122 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 349102009123 active site 349102009124 substrate binding site [chemical binding]; other site 349102009125 cosubstrate binding site; other site 349102009126 catalytic site [active] 349102009127 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 349102009128 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 349102009129 catalytic site [active] 349102009130 putative active site [active] 349102009131 putative substrate binding site [chemical binding]; other site 349102009132 HRDC domain; Region: HRDC; pfam00570 349102009133 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 349102009134 Domain of unknown function (DUF427); Region: DUF427; pfam04248 349102009135 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349102009136 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349102009137 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 349102009138 active site 349102009139 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 349102009140 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 349102009141 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 349102009142 metal ion-dependent adhesion site (MIDAS); other site 349102009143 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 349102009144 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 349102009145 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 349102009146 Walker A motif; other site 349102009147 ATP binding site [chemical binding]; other site 349102009148 Walker B motif; other site 349102009149 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 349102009150 HSP70 interaction site [polypeptide binding]; other site 349102009151 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 349102009152 malate synthase G; Provisional; Region: PRK02999 349102009153 active site 349102009154 DNA photolyase; Region: DNA_photolyase; pfam00875 349102009155 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 349102009156 aminopeptidase N; Provisional; Region: pepN; PRK14015 349102009157 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349102009158 Zn binding site [ion binding]; other site 349102009159 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349102009160 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 349102009161 putative acyl-acceptor binding pocket; other site 349102009162 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 349102009163 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 349102009164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102009165 homodimer interface [polypeptide binding]; other site 349102009166 catalytic residue [active] 349102009167 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 349102009168 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 349102009169 GatB domain; Region: GatB_Yqey; smart00845 349102009170 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 349102009171 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102009172 catalytic residue [active] 349102009173 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 349102009174 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349102009175 HIGH motif; other site 349102009176 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349102009177 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102009178 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102009179 active site 349102009180 KMSKS motif; other site 349102009181 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 349102009182 tRNA binding surface [nucleotide binding]; other site 349102009183 anticodon binding site; other site 349102009184 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 349102009185 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 349102009186 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102009187 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 349102009188 AsnC family; Region: AsnC_trans_reg; pfam01037 349102009189 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 349102009190 dimer interface [polypeptide binding]; other site 349102009191 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 349102009192 active site 349102009193 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349102009194 catalytic residues [active] 349102009195 substrate binding site [chemical binding]; other site 349102009196 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 349102009197 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 349102009198 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 349102009199 dimer interface [polypeptide binding]; other site 349102009200 active site 349102009201 citrylCoA binding site [chemical binding]; other site 349102009202 NADH binding [chemical binding]; other site 349102009203 cationic pore residues; other site 349102009204 oxalacetate/citrate binding site [chemical binding]; other site 349102009205 coenzyme A binding site [chemical binding]; other site 349102009206 catalytic triad [active] 349102009207 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 349102009208 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349102009209 HIGH motif; other site 349102009210 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349102009211 active site 349102009212 KMSKS motif; other site 349102009213 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 349102009214 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 349102009215 Competence protein; Region: Competence; pfam03772 349102009216 LexA repressor; Validated; Region: PRK00215 349102009217 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 349102009218 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 349102009219 Catalytic site [active] 349102009220 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 349102009221 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 349102009222 dimer interface [polypeptide binding]; other site 349102009223 putative functional site; other site 349102009224 putative MPT binding site; other site 349102009225 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 349102009226 trimer interface [polypeptide binding]; other site 349102009227 dimer interface [polypeptide binding]; other site 349102009228 putative active site [active] 349102009229 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 349102009230 active site 349102009231 ribulose/triose binding site [chemical binding]; other site 349102009232 phosphate binding site [ion binding]; other site 349102009233 substrate (anthranilate) binding pocket [chemical binding]; other site 349102009234 product (indole) binding pocket [chemical binding]; other site 349102009235 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349102009236 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 349102009237 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349102009238 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349102009239 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349102009240 glutamine binding [chemical binding]; other site 349102009241 catalytic triad [active] 349102009242 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 349102009243 NodB motif; other site 349102009244 putative active site [active] 349102009245 putative catalytic site [active] 349102009246 anthranilate synthase component I; Provisional; Region: PRK13573 349102009247 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 349102009248 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 349102009249 SurA N-terminal domain; Region: SurA_N_3; cl07813 349102009250 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 349102009251 AsmA family; Region: AsmA; pfam05170 349102009252 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 349102009253 GcrA cell cycle regulator; Region: GcrA; cl11564 349102009254 GcrA cell cycle regulator; Region: GcrA; cl11564 349102009255 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 349102009256 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 349102009257 inhibitor-cofactor binding pocket; inhibition site 349102009258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102009259 catalytic residue [active] 349102009260 ornithine carbamoyltransferase; Provisional; Region: PRK00779 349102009261 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349102009262 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 349102009263 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 349102009264 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 349102009265 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 349102009266 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 349102009267 ATP binding site [chemical binding]; other site 349102009268 putative Mg++ binding site [ion binding]; other site 349102009269 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 349102009270 nucleotide binding region [chemical binding]; other site 349102009271 ATP-binding site [chemical binding]; other site 349102009272 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 349102009273 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 349102009274 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 349102009275 membrane ATPase/protein kinase; Provisional; Region: PRK09435 349102009276 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 349102009277 Walker A; other site 349102009278 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 349102009279 Protein of unknown function (DUF461); Region: DUF461; pfam04314 349102009280 GTP-binding protein LepA; Provisional; Region: PRK05433 349102009281 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 349102009282 G1 box; other site 349102009283 putative GEF interaction site [polypeptide binding]; other site 349102009284 GTP/Mg2+ binding site [chemical binding]; other site 349102009285 Switch I region; other site 349102009286 G2 box; other site 349102009287 G3 box; other site 349102009288 Switch II region; other site 349102009289 G4 box; other site 349102009290 G5 box; other site 349102009291 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 349102009292 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 349102009293 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 349102009294 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 349102009295 ornithine cyclodeaminase; Validated; Region: PRK06141 349102009296 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 349102009297 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 349102009298 S-formylglutathione hydrolase; Region: PLN02442 349102009299 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 349102009300 Predicted permeases [General function prediction only]; Region: COG0679 349102009301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349102009302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102009303 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 349102009304 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 349102009305 putative catalytic site [active] 349102009306 putative phosphate binding site [ion binding]; other site 349102009307 active site 349102009308 metal binding site A [ion binding]; metal-binding site 349102009309 DNA binding site [nucleotide binding] 349102009310 putative AP binding site [nucleotide binding]; other site 349102009311 putative metal binding site B [ion binding]; other site 349102009312 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102009313 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 349102009314 active site 349102009315 phosphorylation site [posttranslational modification] 349102009316 intermolecular recognition site; other site 349102009317 dimerization interface [polypeptide binding]; other site 349102009318 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 349102009319 DNA binding site [nucleotide binding] 349102009320 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 349102009321 dimerization interface [polypeptide binding]; other site 349102009322 active site 349102009323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 349102009324 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 349102009325 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349102009326 catalytic residue [active] 349102009327 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 349102009328 TPR motif; other site 349102009329 binding surface 349102009330 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 349102009331 Gram-negative porin; Region: Porin_4; pfam13609 349102009332 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 349102009333 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 349102009334 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 349102009335 HIGH motif; other site 349102009336 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349102009337 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102009338 active site 349102009339 KMSKS motif; other site 349102009340 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 349102009341 tRNA binding surface [nucleotide binding]; other site 349102009342 Lipopolysaccharide-assembly; Region: LptE; pfam04390 349102009343 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 349102009344 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 349102009345 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 349102009346 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 349102009347 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349102009348 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102009349 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 349102009350 protein binding site [polypeptide binding]; other site 349102009351 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 349102009352 protein binding site [polypeptide binding]; other site 349102009353 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 349102009354 putative substrate translocation pore; other site 349102009355 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102009356 Predicted membrane protein [Function unknown]; Region: COG2261 349102009357 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349102009358 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349102009359 Dehydroquinase class II; Region: DHquinase_II; pfam01220 349102009360 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 349102009361 trimer interface [polypeptide binding]; other site 349102009362 active site 349102009363 dimer interface [polypeptide binding]; other site 349102009364 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349102009365 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 349102009366 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349102009367 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349102009368 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349102009369 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 349102009370 catalytic loop [active] 349102009371 iron binding site [ion binding]; other site 349102009372 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349102009373 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 349102009374 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349102009375 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102009376 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 349102009377 DNA binding residues [nucleotide binding] 349102009378 dimerization interface [polypeptide binding]; other site 349102009379 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 349102009380 active site 349102009381 catalytic residues [active] 349102009382 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 349102009383 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 349102009384 metal binding site [ion binding]; metal-binding site 349102009385 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 349102009386 metal binding site 2 [ion binding]; metal-binding site 349102009387 putative DNA binding helix; other site 349102009388 metal binding site 1 [ion binding]; metal-binding site 349102009389 dimer interface [polypeptide binding]; other site 349102009390 structural Zn2+ binding site [ion binding]; other site 349102009391 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 349102009392 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 349102009393 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349102009394 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349102009395 ABC-ATPase subunit interface; other site 349102009396 dimer interface [polypeptide binding]; other site 349102009397 putative PBP binding regions; other site 349102009398 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102009399 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102009400 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 349102009401 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349102009402 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 349102009403 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 349102009404 active site 349102009405 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 349102009406 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 349102009407 Bacterial transcriptional regulator; Region: IclR; pfam01614 349102009408 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 349102009409 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349102009410 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349102009411 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 349102009412 dimer interface [polypeptide binding]; other site 349102009413 conserved gate region; other site 349102009414 putative PBP binding loops; other site 349102009415 ABC-ATPase subunit interface; other site 349102009416 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 349102009417 dimer interface [polypeptide binding]; other site 349102009418 conserved gate region; other site 349102009419 putative PBP binding loops; other site 349102009420 ABC-ATPase subunit interface; other site 349102009421 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349102009422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102009423 Walker A/P-loop; other site 349102009424 ATP binding site [chemical binding]; other site 349102009425 Q-loop/lid; other site 349102009426 ABC transporter signature motif; other site 349102009427 Walker B; other site 349102009428 D-loop; other site 349102009429 H-loop/switch region; other site 349102009430 TOBE domain; Region: TOBE_2; pfam08402 349102009431 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349102009432 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349102009433 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 349102009434 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 349102009435 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 349102009436 ligand binding site [chemical binding]; other site 349102009437 NAD binding site [chemical binding]; other site 349102009438 dimerization interface [polypeptide binding]; other site 349102009439 catalytic site [active] 349102009440 hypothetical protein; Validated; Region: PRK06201 349102009441 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 349102009442 hypothetical protein; Provisional; Region: PRK07482 349102009443 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 349102009444 inhibitor-cofactor binding pocket; inhibition site 349102009445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102009446 catalytic residue [active] 349102009447 succinic semialdehyde dehydrogenase; Region: PLN02278 349102009448 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 349102009449 tetramerization interface [polypeptide binding]; other site 349102009450 NAD(P) binding site [chemical binding]; other site 349102009451 catalytic residues [active] 349102009452 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102009453 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 349102009454 putative DNA binding site [nucleotide binding]; other site 349102009455 putative Zn2+ binding site [ion binding]; other site 349102009456 AsnC family; Region: AsnC_trans_reg; pfam01037 349102009457 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 349102009458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102009459 DNA-binding site [nucleotide binding]; DNA binding site 349102009460 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 349102009461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102009462 homodimer interface [polypeptide binding]; other site 349102009463 catalytic residue [active] 349102009464 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 349102009465 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349102009466 Walker A/P-loop; other site 349102009467 ATP binding site [chemical binding]; other site 349102009468 Q-loop/lid; other site 349102009469 ABC transporter signature motif; other site 349102009470 Walker B; other site 349102009471 D-loop; other site 349102009472 H-loop/switch region; other site 349102009473 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 349102009474 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102009475 substrate binding pocket [chemical binding]; other site 349102009476 membrane-bound complex binding site; other site 349102009477 hinge residues; other site 349102009478 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349102009479 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 349102009480 dimer interface [polypeptide binding]; other site 349102009481 conserved gate region; other site 349102009482 putative PBP binding loops; other site 349102009483 ABC-ATPase subunit interface; other site 349102009484 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 349102009485 dimer interface [polypeptide binding]; other site 349102009486 conserved gate region; other site 349102009487 putative PBP binding loops; other site 349102009488 ABC-ATPase subunit interface; other site 349102009489 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349102009490 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 349102009491 threonine dehydratase; Provisional; Region: eutB; PRK07476 349102009492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102009493 catalytic residue [active] 349102009494 ectoine utilization protein EutC; Validated; Region: PRK08291 349102009495 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 349102009496 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 349102009497 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349102009498 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 349102009499 active site 349102009500 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 349102009501 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 349102009502 putative active site [active] 349102009503 Zn binding site [ion binding]; other site 349102009504 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102009505 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 349102009506 ligand binding site [chemical binding]; other site 349102009507 flexible hinge region; other site 349102009508 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 349102009509 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 349102009510 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 349102009511 SCP-2 sterol transfer family; Region: SCP2; pfam02036 349102009512 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 349102009513 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 349102009514 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349102009515 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349102009516 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 349102009517 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 349102009518 flavodoxin FldA; Validated; Region: PRK09267 349102009519 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 349102009520 ApbE family; Region: ApbE; pfam02424 349102009521 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 349102009522 hypothetical protein; Provisional; Region: PRK13795 349102009523 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 349102009524 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 349102009525 catalytic loop [active] 349102009526 iron binding site [ion binding]; other site 349102009527 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 349102009528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349102009529 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349102009530 electron transport complex protein RsxA; Provisional; Region: PRK05151 349102009531 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 349102009532 Putative Fe-S cluster; Region: FeS; pfam04060 349102009533 4Fe-4S binding domain; Region: Fer4; pfam00037 349102009534 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 349102009535 SLBB domain; Region: SLBB; pfam10531 349102009536 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 349102009537 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 349102009538 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 349102009539 electron transport complex RsxE subunit; Provisional; Region: PRK12405 349102009540 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 349102009541 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 349102009542 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 349102009543 active site 349102009544 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 349102009545 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 349102009546 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349102009547 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 349102009548 catalytic loop [active] 349102009549 iron binding site [ion binding]; other site 349102009550 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349102009551 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 349102009552 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 349102009553 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349102009554 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 349102009555 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349102009556 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 349102009557 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 349102009558 putative active site [active] 349102009559 putative FMN binding site [chemical binding]; other site 349102009560 putative substrate binding site [chemical binding]; other site 349102009561 putative catalytic residue [active] 349102009562 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102009563 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 349102009564 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 349102009565 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 349102009566 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 349102009567 FeS/SAM binding site; other site 349102009568 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 349102009569 NAD-dependent deacetylase; Provisional; Region: PRK00481 349102009570 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 349102009571 NAD+ binding site [chemical binding]; other site 349102009572 substrate binding site [chemical binding]; other site 349102009573 Zn binding site [ion binding]; other site 349102009574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102009575 Histidine kinase; Region: HisKA_2; pfam07568 349102009576 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 349102009577 ATP binding site [chemical binding]; other site 349102009578 G-X-G motif; other site 349102009579 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349102009580 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 349102009581 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349102009582 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349102009583 Walker A/P-loop; other site 349102009584 ATP binding site [chemical binding]; other site 349102009585 Q-loop/lid; other site 349102009586 ABC transporter signature motif; other site 349102009587 Walker B; other site 349102009588 D-loop; other site 349102009589 H-loop/switch region; other site 349102009590 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349102009591 Walker A/P-loop; other site 349102009592 ATP binding site [chemical binding]; other site 349102009593 Q-loop/lid; other site 349102009594 ABC transporter signature motif; other site 349102009595 Walker B; other site 349102009596 D-loop; other site 349102009597 H-loop/switch region; other site 349102009598 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349102009599 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 349102009600 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102009601 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102009602 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102009603 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 349102009604 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 349102009605 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 349102009606 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 349102009607 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349102009608 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349102009609 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 349102009610 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 349102009611 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 349102009612 [4Fe-4S] binding site [ion binding]; other site 349102009613 molybdopterin cofactor binding site; other site 349102009614 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 349102009615 molybdopterin cofactor binding site; other site 349102009616 NapD protein; Region: NapD; pfam03927 349102009617 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 349102009618 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349102009619 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349102009620 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 349102009621 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102009622 Cache domain; Region: Cache_1; pfam02743 349102009623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102009624 HAMP domain; Region: HAMP; pfam00672 349102009625 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 349102009626 dimer interface [polypeptide binding]; other site 349102009627 phosphorylation site [posttranslational modification] 349102009628 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 349102009629 ATP binding site [chemical binding]; other site 349102009630 Mg2+ binding site [ion binding]; other site 349102009631 G-X-G motif; other site 349102009632 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349102009633 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349102009634 heme binding site [chemical binding]; other site 349102009635 ferroxidase pore; other site 349102009636 ferroxidase diiron center [ion binding]; other site 349102009637 Predicted permeases [General function prediction only]; Region: RarD; COG2962 349102009638 Predicted transcriptional regulator [Transcription]; Region: COG1959 349102009639 Transcriptional regulator; Region: Rrf2; cl17282 349102009640 Protein of unknown function (DUF465); Region: DUF465; pfam04325 349102009641 Rhomboid family; Region: Rhomboid; pfam01694 349102009642 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349102009643 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349102009644 active site 349102009645 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 349102009646 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102009647 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 349102009648 DNA binding residues [nucleotide binding] 349102009649 dimerization interface [polypeptide binding]; other site 349102009650 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 349102009651 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 349102009652 ligand binding site [chemical binding]; other site 349102009653 flexible hinge region; other site 349102009654 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 349102009655 putative switch regulator; other site 349102009656 non-specific DNA interactions [nucleotide binding]; other site 349102009657 DNA binding site [nucleotide binding] 349102009658 sequence specific DNA binding site [nucleotide binding]; other site 349102009659 putative cAMP binding site [chemical binding]; other site 349102009660 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349102009661 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349102009662 Dynamin family; Region: Dynamin_N; pfam00350 349102009663 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009664 G1 box; other site 349102009665 GTP/Mg2+ binding site [chemical binding]; other site 349102009666 G2 box; other site 349102009667 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009668 G3 box; other site 349102009669 Switch II region; other site 349102009670 GTP/Mg2+ binding site [chemical binding]; other site 349102009671 G4 box; other site 349102009672 G5 box; other site 349102009673 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009674 G1 box; other site 349102009675 GTP/Mg2+ binding site [chemical binding]; other site 349102009676 G2 box; other site 349102009677 Switch I region; other site 349102009678 G3 box; other site 349102009679 Switch II region; other site 349102009680 G4 box; other site 349102009681 G5 box; other site 349102009682 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009683 G1 box; other site 349102009684 GTP/Mg2+ binding site [chemical binding]; other site 349102009685 G2 box; other site 349102009686 Switch I region; other site 349102009687 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009688 G3 box; other site 349102009689 Switch II region; other site 349102009690 G4 box; other site 349102009691 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009692 Dynamin family; Region: Dynamin_N; pfam00350 349102009693 G1 box; other site 349102009694 GTP/Mg2+ binding site [chemical binding]; other site 349102009695 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349102009696 Switch II region; other site 349102009697 G4 box; other site 349102009698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102009699 Histidine kinase; Region: HisKA_2; pfam07568 349102009700 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 349102009701 ATP binding site [chemical binding]; other site 349102009702 Mg2+ binding site [ion binding]; other site 349102009703 G-X-G motif; other site 349102009704 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102009705 active site 349102009706 Uncharacterized conserved protein [Function unknown]; Region: COG5663 349102009707 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 349102009708 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 349102009709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349102009710 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102009711 active site 349102009712 Uncharacterized conserved protein [Function unknown]; Region: COG5663 349102009713 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 349102009714 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 349102009715 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349102009716 selenophosphate synthetase; Provisional; Region: PRK00943 349102009717 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 349102009718 dimerization interface [polypeptide binding]; other site 349102009719 putative ATP binding site [chemical binding]; other site 349102009720 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 349102009721 dimerization interface [polypeptide binding]; other site 349102009722 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102009723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102009724 dimer interface [polypeptide binding]; other site 349102009725 putative CheW interface [polypeptide binding]; other site 349102009726 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 349102009727 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349102009728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102009729 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 349102009730 Walker A/P-loop; other site 349102009731 ATP binding site [chemical binding]; other site 349102009732 Q-loop/lid; other site 349102009733 ABC transporter signature motif; other site 349102009734 Walker B; other site 349102009735 D-loop; other site 349102009736 H-loop/switch region; other site 349102009737 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102009738 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102009739 DNA-binding site [nucleotide binding]; DNA binding site 349102009740 FCD domain; Region: FCD; pfam07729 349102009741 short chain dehydrogenase; Provisional; Region: PRK06138 349102009742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102009743 NAD(P) binding site [chemical binding]; other site 349102009744 active site 349102009745 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 349102009746 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102009747 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 349102009748 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 349102009749 DctM-like transporters; Region: DctM; pfam06808 349102009750 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 349102009751 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 349102009752 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 349102009753 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 349102009754 dimer interface [polypeptide binding]; other site 349102009755 conserved gate region; other site 349102009756 ABC-ATPase subunit interface; other site 349102009757 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 349102009758 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 349102009759 dimer interface [polypeptide binding]; other site 349102009760 conserved gate region; other site 349102009761 ABC-ATPase subunit interface; other site 349102009762 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 349102009763 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 349102009764 Walker A/P-loop; other site 349102009765 ATP binding site [chemical binding]; other site 349102009766 Q-loop/lid; other site 349102009767 ABC transporter signature motif; other site 349102009768 Walker B; other site 349102009769 D-loop; other site 349102009770 H-loop/switch region; other site 349102009771 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 349102009772 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 349102009773 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 349102009774 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 349102009775 DctM-like transporters; Region: DctM; pfam06808 349102009776 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 349102009777 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 349102009778 membrane-bound complex binding site; other site 349102009779 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102009780 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 349102009781 putative ligand binding site [chemical binding]; other site 349102009782 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 349102009783 TM-ABC transporter signature motif; other site 349102009784 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102009785 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 349102009786 TM-ABC transporter signature motif; other site 349102009787 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349102009788 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 349102009789 Walker A/P-loop; other site 349102009790 ATP binding site [chemical binding]; other site 349102009791 Q-loop/lid; other site 349102009792 ABC transporter signature motif; other site 349102009793 Walker B; other site 349102009794 D-loop; other site 349102009795 H-loop/switch region; other site 349102009796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349102009797 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 349102009798 Walker A/P-loop; other site 349102009799 ATP binding site [chemical binding]; other site 349102009800 Q-loop/lid; other site 349102009801 ABC transporter signature motif; other site 349102009802 Walker B; other site 349102009803 D-loop; other site 349102009804 H-loop/switch region; other site 349102009805 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349102009806 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102009807 Walker A/P-loop; other site 349102009808 ATP binding site [chemical binding]; other site 349102009809 Q-loop/lid; other site 349102009810 ABC transporter signature motif; other site 349102009811 Walker B; other site 349102009812 D-loop; other site 349102009813 H-loop/switch region; other site 349102009814 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102009815 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102009816 Walker A/P-loop; other site 349102009817 ATP binding site [chemical binding]; other site 349102009818 Q-loop/lid; other site 349102009819 ABC transporter signature motif; other site 349102009820 Walker B; other site 349102009821 D-loop; other site 349102009822 H-loop/switch region; other site 349102009823 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 349102009824 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 349102009825 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 349102009826 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349102009827 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349102009828 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 349102009829 dimer interface [polypeptide binding]; other site 349102009830 conserved gate region; other site 349102009831 putative PBP binding loops; other site 349102009832 ABC-ATPase subunit interface; other site 349102009833 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349102009834 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 349102009835 dimer interface [polypeptide binding]; other site 349102009836 conserved gate region; other site 349102009837 putative PBP binding loops; other site 349102009838 ABC-ATPase subunit interface; other site 349102009839 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 349102009840 ANTAR domain; Region: ANTAR; pfam03861 349102009841 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102009842 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349102009843 aminotransferase; Provisional; Region: PRK06105 349102009844 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 349102009845 inhibitor-cofactor binding pocket; inhibition site 349102009846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102009847 catalytic residue [active] 349102009848 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 349102009849 active site 349102009850 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349102009851 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 349102009852 Walker A/P-loop; other site 349102009853 ATP binding site [chemical binding]; other site 349102009854 Q-loop/lid; other site 349102009855 ABC transporter signature motif; other site 349102009856 Walker B; other site 349102009857 D-loop; other site 349102009858 H-loop/switch region; other site 349102009859 TOBE domain; Region: TOBE_2; pfam08402 349102009860 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102009861 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 349102009862 dimer interface [polypeptide binding]; other site 349102009863 conserved gate region; other site 349102009864 putative PBP binding loops; other site 349102009865 ABC-ATPase subunit interface; other site 349102009866 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 349102009867 dimer interface [polypeptide binding]; other site 349102009868 conserved gate region; other site 349102009869 putative PBP binding loops; other site 349102009870 ABC-ATPase subunit interface; other site 349102009871 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102009872 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349102009873 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 349102009874 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 349102009875 PhoU domain; Region: PhoU; pfam01895 349102009876 PhoU domain; Region: PhoU; pfam01895 349102009877 choline dehydrogenase; Validated; Region: PRK02106 349102009878 lycopene cyclase; Region: lycopene_cycl; TIGR01789 349102009879 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349102009880 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 349102009881 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 349102009882 TM-ABC transporter signature motif; other site 349102009883 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102009884 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 349102009885 TM-ABC transporter signature motif; other site 349102009886 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349102009887 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 349102009888 Walker A/P-loop; other site 349102009889 ATP binding site [chemical binding]; other site 349102009890 Q-loop/lid; other site 349102009891 ABC transporter signature motif; other site 349102009892 Walker B; other site 349102009893 D-loop; other site 349102009894 H-loop/switch region; other site 349102009895 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349102009896 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 349102009897 Walker A/P-loop; other site 349102009898 ATP binding site [chemical binding]; other site 349102009899 Q-loop/lid; other site 349102009900 ABC transporter signature motif; other site 349102009901 Walker B; other site 349102009902 D-loop; other site 349102009903 H-loop/switch region; other site 349102009904 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102009905 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 349102009906 putative ligand binding site [chemical binding]; other site 349102009907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102009908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102009909 LysR substrate binding domain; Region: LysR_substrate; pfam03466 349102009910 dimerization interface [polypeptide binding]; other site 349102009911 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 349102009912 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 349102009913 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 349102009914 active site 349102009915 intersubunit interface [polypeptide binding]; other site 349102009916 catalytic residue [active] 349102009917 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 349102009918 Response regulator receiver domain; Region: Response_reg; pfam00072 349102009919 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 349102009920 active site 349102009921 phosphorylation site [posttranslational modification] 349102009922 intermolecular recognition site; other site 349102009923 dimerization interface [polypeptide binding]; other site 349102009924 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349102009925 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 349102009926 dimerization interface [polypeptide binding]; other site 349102009927 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102009928 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102009929 dimer interface [polypeptide binding]; other site 349102009930 putative CheW interface [polypeptide binding]; other site 349102009931 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349102009932 ABC1 family; Region: ABC1; pfam03109 349102009933 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 349102009934 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 349102009935 EamA-like transporter family; Region: EamA; pfam00892 349102009936 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 349102009937 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 349102009938 dimer interface [polypeptide binding]; other site 349102009939 active site 349102009940 heme binding site [chemical binding]; other site 349102009941 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 349102009942 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 349102009943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102009944 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 349102009945 dimerization interface [polypeptide binding]; other site 349102009946 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349102009947 putative PBP binding regions; other site 349102009948 ABC-ATPase subunit interface; other site 349102009949 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349102009950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349102009951 circadian clock protein KaiC; Reviewed; Region: PRK09302 349102009952 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 349102009953 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 349102009954 Walker A motif; other site 349102009955 Walker A motif; other site 349102009956 ATP binding site [chemical binding]; other site 349102009957 Walker B motif; other site 349102009958 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 349102009959 Walker A motif; other site 349102009960 ATP binding site [chemical binding]; other site 349102009961 Walker B motif; other site 349102009962 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 349102009963 tetramer interface [polypeptide binding]; other site 349102009964 dimer interface [polypeptide binding]; other site 349102009965 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 349102009966 PAS domain; Region: PAS_9; pfam13426 349102009967 putative active site [active] 349102009968 heme pocket [chemical binding]; other site 349102009969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102009970 HWE histidine kinase; Region: HWE_HK; pfam07536 349102009971 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102009972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102009973 metal binding site [ion binding]; metal-binding site 349102009974 active site 349102009975 I-site; other site 349102009976 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 349102009977 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 349102009978 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 349102009979 nitrous-oxide reductase; Validated; Region: PRK02888 349102009980 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 349102009981 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 349102009982 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 349102009983 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 349102009984 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102009985 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102009986 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 349102009987 NosL; Region: NosL; pfam05573 349102009988 ApbE family; Region: ApbE; pfam02424 349102009989 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 349102009990 L-lactate permease; Region: Lactate_perm; cl00701 349102009991 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 349102009992 L-lactate permease; Region: Lactate_perm; cl00701 349102009993 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 349102009994 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349102009995 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349102009996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349102009997 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 349102009998 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 349102009999 N-terminal plug; other site 349102010000 ligand-binding site [chemical binding]; other site 349102010001 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 349102010002 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349102010003 siderophore binding site; other site 349102010004 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349102010005 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349102010006 ABC-ATPase subunit interface; other site 349102010007 dimer interface [polypeptide binding]; other site 349102010008 putative PBP binding regions; other site 349102010009 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349102010010 ABC-ATPase subunit interface; other site 349102010011 dimer interface [polypeptide binding]; other site 349102010012 putative PBP binding regions; other site 349102010013 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349102010014 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349102010015 Walker A/P-loop; other site 349102010016 ATP binding site [chemical binding]; other site 349102010017 Q-loop/lid; other site 349102010018 ABC transporter signature motif; other site 349102010019 Walker B; other site 349102010020 D-loop; other site 349102010021 H-loop/switch region; other site 349102010022 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349102010023 classical (c) SDRs; Region: SDR_c; cd05233 349102010024 NAD(P) binding site [chemical binding]; other site 349102010025 active site 349102010026 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 349102010027 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349102010028 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 349102010029 active site 349102010030 phosphorylation site [posttranslational modification] 349102010031 intermolecular recognition site; other site 349102010032 dimerization interface [polypeptide binding]; other site 349102010033 PAS domain; Region: PAS_9; pfam13426 349102010034 hypothetical protein; Provisional; Region: PRK13559 349102010035 HWE histidine kinase; Region: HWE_HK; smart00911 349102010036 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 349102010037 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 349102010038 Trp docking motif [polypeptide binding]; other site 349102010039 putative active site [active] 349102010040 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349102010041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102010042 DNA-binding site [nucleotide binding]; DNA binding site 349102010043 FCD domain; Region: FCD; pfam07729 349102010044 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102010045 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102010046 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 349102010047 DctM-like transporters; Region: DctM; pfam06808 349102010048 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 349102010049 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 349102010050 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349102010051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102010052 EamA-like transporter family; Region: EamA; pfam00892 349102010053 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349102010054 EamA-like transporter family; Region: EamA; pfam00892 349102010055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102010056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102010057 LysR substrate binding domain; Region: LysR_substrate; pfam03466 349102010058 dimerization interface [polypeptide binding]; other site 349102010059 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349102010060 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349102010061 NAD(P) binding site [chemical binding]; other site 349102010062 catalytic residues [active] 349102010063 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349102010064 NAD(P) binding site [chemical binding]; other site 349102010065 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 349102010066 intersubunit interface [polypeptide binding]; other site 349102010067 active site 349102010068 catalytic residue [active] 349102010069 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349102010070 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 349102010071 substrate binding site [chemical binding]; other site 349102010072 dimer interface [polypeptide binding]; other site 349102010073 ATP binding site [chemical binding]; other site 349102010074 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 349102010075 active site 349102010076 catalytic residues [active] 349102010077 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349102010078 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102010079 TM-ABC transporter signature motif; other site 349102010080 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102010081 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349102010082 TM-ABC transporter signature motif; other site 349102010083 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349102010084 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349102010085 Walker A/P-loop; other site 349102010086 ATP binding site [chemical binding]; other site 349102010087 Q-loop/lid; other site 349102010088 ABC transporter signature motif; other site 349102010089 Walker B; other site 349102010090 D-loop; other site 349102010091 H-loop/switch region; other site 349102010092 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349102010093 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 349102010094 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349102010095 ligand binding site [chemical binding]; other site 349102010096 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349102010097 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 349102010098 putative S-transferase; Provisional; Region: PRK11752 349102010099 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 349102010100 C-terminal domain interface [polypeptide binding]; other site 349102010101 GSH binding site (G-site) [chemical binding]; other site 349102010102 dimer interface [polypeptide binding]; other site 349102010103 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 349102010104 dimer interface [polypeptide binding]; other site 349102010105 N-terminal domain interface [polypeptide binding]; other site 349102010106 active site 349102010107 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 349102010108 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 349102010109 molybdenum-pterin binding domain; Region: Mop; TIGR00638 349102010110 molybdenum-pterin binding domain; Region: Mop; TIGR00638 349102010111 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102010112 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 349102010113 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 349102010114 dimerization interface [polypeptide binding]; other site 349102010115 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 349102010116 ATP binding site [chemical binding]; other site 349102010117 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 349102010118 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 349102010119 HupF/HypC family; Region: HupF_HypC; cl00394 349102010120 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349102010121 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 349102010122 active site 349102010123 phosphorylation site [posttranslational modification] 349102010124 intermolecular recognition site; other site 349102010125 dimerization interface [polypeptide binding]; other site 349102010126 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 349102010127 Walker A motif; other site 349102010128 ATP binding site [chemical binding]; other site 349102010129 Walker B motif; other site 349102010130 arginine finger; other site 349102010131 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349102010132 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 349102010133 G1 box; other site 349102010134 GTP/Mg2+ binding site [chemical binding]; other site 349102010135 G2 box; other site 349102010136 Switch I region; other site 349102010137 Switch II region; other site 349102010138 G4 box; other site 349102010139 G5 box; other site 349102010140 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 349102010141 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 349102010142 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 349102010143 Rubredoxin; Region: Rubredoxin; pfam00301 349102010144 iron binding site [ion binding]; other site 349102010145 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 349102010146 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 349102010147 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 349102010148 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 349102010149 HupF/HypC family; Region: HupF_HypC; pfam01455 349102010150 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 349102010151 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 349102010152 putative substrate-binding site; other site 349102010153 nickel binding site [ion binding]; other site 349102010154 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 349102010155 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 349102010156 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 349102010157 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 349102010158 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 349102010159 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 349102010160 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 349102010161 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 349102010162 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 349102010163 Acylphosphatase; Region: Acylphosphatase; pfam00708 349102010164 HypF finger; Region: zf-HYPF; pfam07503 349102010165 HypF finger; Region: zf-HYPF; pfam07503 349102010166 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 349102010167 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 349102010168 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 349102010169 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 349102010170 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349102010171 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 349102010172 putative active site [active] 349102010173 heme pocket [chemical binding]; other site 349102010174 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 349102010175 dimer interface [polypeptide binding]; other site 349102010176 phosphorylation site [posttranslational modification] 349102010177 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 349102010178 ATP binding site [chemical binding]; other site 349102010179 Mg2+ binding site [ion binding]; other site 349102010180 G-X-G motif; other site 349102010181 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010183 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010184 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 349102010185 Integrase core domain; Region: rve; pfam00665 349102010186 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 349102010187 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 349102010188 active site 349102010189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010190 Walker B; other site 349102010191 D-loop; other site 349102010192 H-loop/switch region; other site 349102010193 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349102010194 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349102010195 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 349102010196 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 349102010197 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 349102010198 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 349102010199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010200 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010201 Transposase; Region: HTH_Tnp_1; pfam01527 349102010202 Transposase; Region: HTH_Tnp_1; pfam01527 349102010203 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 349102010204 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349102010205 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 349102010206 putative ADP-binding pocket [chemical binding]; other site 349102010207 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 349102010208 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349102010209 DXD motif; other site 349102010210 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 349102010211 putative ADP-binding pocket [chemical binding]; other site 349102010212 O-Antigen ligase; Region: Wzy_C; cl04850 349102010213 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 349102010214 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 349102010215 putative active site [active] 349102010216 putative metal binding site [ion binding]; other site 349102010217 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 349102010218 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 349102010219 Chain length determinant protein; Region: Wzz; cl15801 349102010220 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 349102010221 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349102010222 Right handed beta helix region; Region: Beta_helix; pfam13229 349102010223 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 349102010224 Bacterial sugar transferase; Region: Bac_transf; cl00939 349102010225 Uncharacterized conserved protein [Function unknown]; Region: COG1742 349102010226 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 349102010227 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 349102010228 DNA binding residues [nucleotide binding] 349102010229 dimer interface [polypeptide binding]; other site 349102010230 putative metal binding site [ion binding]; other site 349102010231 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 349102010232 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 349102010233 metal-binding site [ion binding] 349102010234 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349102010235 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 349102010236 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 349102010237 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 349102010238 metal ion-dependent adhesion site (MIDAS); other site 349102010239 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349102010240 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349102010241 active site 349102010242 ATP binding site [chemical binding]; other site 349102010243 substrate binding site [chemical binding]; other site 349102010244 activation loop (A-loop); other site 349102010245 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 349102010246 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 349102010247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010248 Walker A/P-loop; other site 349102010249 ATP binding site [chemical binding]; other site 349102010250 Q-loop/lid; other site 349102010251 ABC transporter signature motif; other site 349102010252 Walker B; other site 349102010253 D-loop; other site 349102010254 H-loop/switch region; other site 349102010255 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102010256 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 349102010257 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 349102010258 phosphopeptide binding site; other site 349102010259 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 349102010260 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349102010261 active site 349102010262 ATP binding site [chemical binding]; other site 349102010263 substrate binding site [chemical binding]; other site 349102010264 activation loop (A-loop); other site 349102010265 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 349102010266 Protein phosphatase 2C; Region: PP2C; pfam00481 349102010267 active site 349102010268 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 349102010269 phosphopeptide binding site; other site 349102010270 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 349102010271 metal ion-dependent adhesion site (MIDAS); other site 349102010272 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 349102010273 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 349102010274 phosphopeptide binding site; other site 349102010275 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349102010276 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349102010277 Walker A/P-loop; other site 349102010278 ATP binding site [chemical binding]; other site 349102010279 Q-loop/lid; other site 349102010280 ABC transporter signature motif; other site 349102010281 Walker B; other site 349102010282 D-loop; other site 349102010283 H-loop/switch region; other site 349102010284 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 349102010285 cobalt transport protein CbiM; Validated; Region: PRK06265 349102010286 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 349102010287 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 349102010288 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 349102010289 biosynthesis cluster domain; Region: biosyn_clust_1; TIGR04098 349102010290 Vi polysaccharide export protein VexE; Provisional; Region: PRK15174 349102010291 Phosphopantetheine attachment site; Region: PP-binding; cl09936 349102010292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 349102010293 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 349102010294 Rhamnan synthesis protein F; Region: RgpF; pfam05045 349102010295 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102010296 UDP-glucose 4-epimerase (G4E), subgroup 5, extended (e) SDRs; Region: UDP_G4E_5_SDR_e; cd05264 349102010297 putative NAD(P) binding site [chemical binding]; other site 349102010298 active site 349102010299 putative substrate binding site [chemical binding]; other site 349102010300 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 349102010301 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349102010302 Cysteine-rich small domain; Region: zf-like; cl00946 349102010303 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 349102010304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010305 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010306 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 349102010307 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 349102010308 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 349102010309 Chromate transporter; Region: Chromate_transp; pfam02417 349102010310 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 349102010311 CrcB-like protein; Region: CRCB; cl09114 349102010312 CrcB-like protein; Region: CRCB; cl09114 349102010313 GTPase RsgA; Reviewed; Region: PRK01889 349102010314 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 349102010315 GTPase/Zn-binding domain interface [polypeptide binding]; other site 349102010316 GTP/Mg2+ binding site [chemical binding]; other site 349102010317 G4 box; other site 349102010318 G5 box; other site 349102010319 G1 box; other site 349102010320 Switch I region; other site 349102010321 G2 box; other site 349102010322 G3 box; other site 349102010323 Switch II region; other site 349102010324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 349102010325 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 349102010326 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 349102010327 active site 349102010328 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349102010329 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 349102010330 Sulfate transporter family; Region: Sulfate_transp; pfam00916 349102010331 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 349102010332 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 349102010333 Ligand Binding Site [chemical binding]; other site 349102010334 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 349102010335 Ligand Binding Site [chemical binding]; other site 349102010336 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 349102010337 putative metal binding site [ion binding]; other site 349102010338 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 349102010339 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 349102010340 active site 349102010341 nucleophile elbow; other site 349102010342 H+ Antiporter protein; Region: 2A0121; TIGR00900 349102010343 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349102010344 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102010345 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102010346 AbgT putative transporter family; Region: ABG_transport; cl17431 349102010347 AbgT putative transporter family; Region: ABG_transport; cl17431 349102010348 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 349102010349 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 349102010350 transmembrane helices; other site 349102010351 TrkA-C domain; Region: TrkA_C; pfam02080 349102010352 TrkA-C domain; Region: TrkA_C; pfam02080 349102010353 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349102010354 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 349102010355 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 349102010356 Transposase; Region: HTH_Tnp_1; pfam01527 349102010357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349102010358 Integrase core domain; Region: rve; pfam00665 349102010359 Integrase core domain; Region: rve_3; pfam13683 349102010360 Integrase core domain; Region: rve_3; pfam13683 349102010361 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010363 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010364 Integrase core domain; Region: rve; pfam00665 349102010365 Helix-turn-helix domain; Region: HTH_38; pfam13936 349102010366 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 349102010367 Integrase core domain; Region: rve; pfam00665 349102010368 HTH-like domain; Region: HTH_21; pfam13276 349102010369 Integrase core domain; Region: rve; pfam00665 349102010370 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 349102010371 catalytic residues [active] 349102010372 catalytic nucleophile [active] 349102010373 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 349102010374 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349102010375 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349102010376 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349102010377 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349102010378 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 349102010379 acyl-activating enzyme (AAE) consensus motif; other site 349102010380 AMP binding site [chemical binding]; other site 349102010381 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 349102010382 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 349102010383 putative active site [active] 349102010384 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 349102010385 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 349102010386 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010387 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010389 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010390 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102010391 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 349102010392 ligand binding site [chemical binding]; other site 349102010393 flexible hinge region; other site 349102010394 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 349102010395 putative switch regulator; other site 349102010396 non-specific DNA interactions [nucleotide binding]; other site 349102010397 DNA binding site [nucleotide binding] 349102010398 sequence specific DNA binding site [nucleotide binding]; other site 349102010399 putative cAMP binding site [chemical binding]; other site 349102010400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102010401 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 349102010402 ATP binding site [chemical binding]; other site 349102010403 Mg2+ binding site [ion binding]; other site 349102010404 G-X-G motif; other site 349102010405 Putative glucoamylase; Region: Glycoamylase; pfam10091 349102010406 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 349102010407 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 349102010408 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 349102010409 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 349102010410 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 349102010411 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102010412 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102010413 topology modulation protein; Reviewed; Region: PRK08118 349102010414 AAA domain; Region: AAA_17; pfam13207 349102010415 transposase; Validated; Region: PRK08181 349102010416 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 349102010417 Walker A motif; other site 349102010418 ATP binding site [chemical binding]; other site 349102010419 Walker B motif; other site 349102010420 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 349102010421 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010423 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010424 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 349102010425 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 349102010426 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 349102010427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102010428 Transposase; Region: HTH_Tnp_1; pfam01527 349102010429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010430 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102010431 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010433 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010434 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102010435 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102010436 response regulator; Provisional; Region: PRK13435 349102010437 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349102010438 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 349102010439 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 349102010440 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 349102010441 active site 349102010442 dimer interface [polypeptide binding]; other site 349102010443 effector binding site; other site 349102010444 TSCPD domain; Region: TSCPD; pfam12637 349102010445 Transposase; Region: HTH_Tnp_1; cl17663 349102010446 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102010447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010448 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102010449 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102010450 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102010451 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102010452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010453 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102010454 Transposase; Region: HTH_Tnp_1; pfam01527 349102010455 HTH-like domain; Region: HTH_21; pfam13276 349102010456 Integrase core domain; Region: rve; pfam00665 349102010457 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010459 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010460 Integrase core domain; Region: rve_3; pfam13683 349102010461 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 349102010462 AAA domain; Region: AAA_21; pfam13304 349102010463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010464 Walker B; other site 349102010465 D-loop; other site 349102010466 H-loop/switch region; other site 349102010467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010468 Walker A/P-loop; other site 349102010469 ATP binding site [chemical binding]; other site 349102010470 AAA domain; Region: AAA_21; pfam13304 349102010471 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 349102010472 putative active site [active] 349102010473 putative metal-binding site [ion binding]; other site 349102010474 Part of AAA domain; Region: AAA_19; pfam13245 349102010475 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 349102010476 Family description; Region: UvrD_C_2; pfam13538 349102010477 Abortive infection C-terminus; Region: Abi_C; pfam14355 349102010478 TniQ; Region: TniQ; pfam06527 349102010479 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 349102010480 PLD-like domain; Region: PLDc_2; pfam13091 349102010481 putative homodimer interface [polypeptide binding]; other site 349102010482 putative active site [active] 349102010483 catalytic site [active] 349102010484 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 349102010485 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 349102010486 ATP binding site [chemical binding]; other site 349102010487 putative Mg++ binding site [ion binding]; other site 349102010488 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 349102010489 nucleotide binding region [chemical binding]; other site 349102010490 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 349102010491 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102010492 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102010493 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102010494 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 349102010495 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349102010496 Methyltransferase domain; Region: Methyltransf_26; pfam13659 349102010497 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 349102010498 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 349102010499 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 349102010500 ATP binding site [chemical binding]; other site 349102010501 putative Mg++ binding site [ion binding]; other site 349102010502 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cl14879 349102010503 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 349102010504 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 349102010505 active site 349102010506 catalytic site [active] 349102010507 substrate binding site [chemical binding]; other site 349102010508 BRCA1 C Terminus (BRCT) domain; Region: BRCT; pfam00533 349102010509 Dimer interface [polypeptide binding]; other site 349102010510 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102010511 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102010512 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102010513 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 349102010514 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 349102010515 Walker A motif; other site 349102010516 ATP binding site [chemical binding]; other site 349102010517 Walker B motif; other site 349102010518 arginine finger; other site 349102010519 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 349102010520 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 349102010521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010522 Walker A/P-loop; other site 349102010523 ATP binding site [chemical binding]; other site 349102010524 Q-loop/lid; other site 349102010525 ABC transporter signature motif; other site 349102010526 Walker B; other site 349102010527 D-loop; other site 349102010528 H-loop/switch region; other site 349102010529 TOBE domain; Region: TOBE_2; pfam08402 349102010530 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349102010531 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 349102010532 dimer interface [polypeptide binding]; other site 349102010533 conserved gate region; other site 349102010534 putative PBP binding loops; other site 349102010535 ABC-ATPase subunit interface; other site 349102010536 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102010537 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 349102010538 dimer interface [polypeptide binding]; other site 349102010539 conserved gate region; other site 349102010540 putative PBP binding loops; other site 349102010541 ABC-ATPase subunit interface; other site 349102010542 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349102010543 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349102010544 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 349102010545 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102010546 active site 349102010547 metal binding site [ion binding]; metal-binding site 349102010548 hexamer interface [polypeptide binding]; other site 349102010549 Transposase; Region: HTH_Tnp_1; cl17663 349102010550 HTH-like domain; Region: HTH_21; pfam13276 349102010551 Integrase core domain; Region: rve; pfam00665 349102010552 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010554 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010555 Integrase core domain; Region: rve_3; pfam13683 349102010556 Integrase core domain; Region: rve_3; pfam13683 349102010557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 349102010558 Integrase core domain; Region: rve; pfam00665 349102010559 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 349102010560 Walker A motif; other site 349102010561 ATP binding site [chemical binding]; other site 349102010562 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010563 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 349102010564 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102010565 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 349102010566 malonyl-CoA synthase; Validated; Region: PRK07514 349102010567 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 349102010568 acyl-activating enzyme (AAE) consensus motif; other site 349102010569 active site 349102010570 AMP binding site [chemical binding]; other site 349102010571 CoA binding site [chemical binding]; other site 349102010572 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 349102010573 DctM-like transporters; Region: DctM; pfam06808 349102010574 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 349102010575 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 349102010576 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349102010577 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102010578 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102010579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102010580 DNA-binding site [nucleotide binding]; DNA binding site 349102010581 FCD domain; Region: FCD; pfam07729 349102010582 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 349102010583 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 349102010584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102010585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102010586 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 349102010587 dimerization interface [polypeptide binding]; other site 349102010588 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 349102010589 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 349102010590 Walker A motif; other site 349102010591 ATP binding site [chemical binding]; other site 349102010592 Walker B motif; other site 349102010593 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 349102010594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 349102010595 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 349102010596 PAS fold; Region: PAS_3; pfam08447 349102010597 putative active site [active] 349102010598 heme pocket [chemical binding]; other site 349102010599 PAS domain S-box; Region: sensory_box; TIGR00229 349102010600 PAS domain; Region: PAS; smart00091 349102010601 putative active site [active] 349102010602 heme pocket [chemical binding]; other site 349102010603 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102010604 metal binding site [ion binding]; metal-binding site 349102010605 active site 349102010606 I-site; other site 349102010607 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 349102010608 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 349102010609 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102010610 putative substrate translocation pore; other site 349102010611 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 349102010612 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 349102010613 motif II; other site 349102010614 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349102010615 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 349102010616 Walker A/P-loop; other site 349102010617 ATP binding site [chemical binding]; other site 349102010618 Q-loop/lid; other site 349102010619 ABC transporter signature motif; other site 349102010620 Walker B; other site 349102010621 D-loop; other site 349102010622 H-loop/switch region; other site 349102010623 TOBE domain; Region: TOBE_2; pfam08402 349102010624 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349102010625 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 349102010626 inhibitor binding site; inhibition site 349102010627 catalytic Zn binding site [ion binding]; other site 349102010628 structural Zn binding site [ion binding]; other site 349102010629 NADP binding site [chemical binding]; other site 349102010630 tetramer interface [polypeptide binding]; other site 349102010631 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 349102010632 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102010633 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 349102010634 dimer interface [polypeptide binding]; other site 349102010635 conserved gate region; other site 349102010636 putative PBP binding loops; other site 349102010637 ABC-ATPase subunit interface; other site 349102010638 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349102010639 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349102010640 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349102010641 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 349102010642 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 349102010643 DNA binding residues [nucleotide binding] 349102010644 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 349102010645 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349102010646 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 349102010647 substrate binding site [chemical binding]; other site 349102010648 ATP binding site [chemical binding]; other site 349102010649 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 349102010650 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349102010651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102010652 NAD(P) binding site [chemical binding]; other site 349102010653 active site 349102010654 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 349102010655 classical (c) SDRs; Region: SDR_c; cd05233 349102010656 NAD(P) binding site [chemical binding]; other site 349102010657 active site 349102010658 PAS domain; Region: PAS_9; pfam13426 349102010659 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 349102010660 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 349102010661 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 349102010662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102010663 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349102010664 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349102010665 Cytochrome c; Region: Cytochrom_C; pfam00034 349102010666 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 349102010667 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 349102010668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349102010669 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 349102010670 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349102010671 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 349102010672 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 349102010673 putative FMN binding site [chemical binding]; other site 349102010674 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 349102010675 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 349102010676 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 349102010677 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 349102010678 BON domain; Region: BON; pfam04972 349102010679 BON domain; Region: BON; pfam04972 349102010680 BON domain; Region: BON; pfam04972 349102010681 FOG: CBS domain [General function prediction only]; Region: COG0517 349102010682 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_9; cd04622 349102010683 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 349102010684 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 349102010685 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102010686 active site 349102010687 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 349102010688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 349102010689 Protein required for attachment to host cells; Region: Host_attach; pfam10116 349102010690 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 349102010691 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102010692 ligand binding site [chemical binding]; other site 349102010693 flexible hinge region; other site 349102010694 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 349102010695 putative switch regulator; other site 349102010696 non-specific DNA interactions [nucleotide binding]; other site 349102010697 DNA binding site [nucleotide binding] 349102010698 sequence specific DNA binding site [nucleotide binding]; other site 349102010699 putative cAMP binding site [chemical binding]; other site 349102010700 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349102010701 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 349102010702 flexible hinge region; other site 349102010703 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 349102010704 putative switch regulator; other site 349102010705 non-specific DNA interactions [nucleotide binding]; other site 349102010706 DNA binding site [nucleotide binding] 349102010707 sequence specific DNA binding site [nucleotide binding]; other site 349102010708 putative cAMP binding site [chemical binding]; other site 349102010709 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 349102010710 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 349102010711 putative dimer interface [polypeptide binding]; other site 349102010712 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349102010713 active site 349102010714 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 349102010715 S-adenosylmethionine binding site [chemical binding]; other site 349102010716 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 349102010717 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 349102010718 active site 349102010719 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349102010720 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 349102010721 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 349102010722 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 349102010723 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 349102010724 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102010725 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 349102010726 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 349102010727 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349102010728 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 349102010729 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349102010730 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 349102010731 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349102010732 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 349102010733 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 349102010734 putative dimer interface [polypeptide binding]; other site 349102010735 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349102010736 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 349102010737 dimer interface [polypeptide binding]; other site 349102010738 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 349102010739 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 349102010740 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 349102010741 putative hydrophobic ligand binding site [chemical binding]; other site 349102010742 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349102010743 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349102010744 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 349102010745 dimer interface [polypeptide binding]; other site 349102010746 conserved gate region; other site 349102010747 putative PBP binding loops; other site 349102010748 ABC-ATPase subunit interface; other site 349102010749 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 349102010750 dimer interface [polypeptide binding]; other site 349102010751 conserved gate region; other site 349102010752 putative PBP binding loops; other site 349102010753 ABC-ATPase subunit interface; other site 349102010754 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349102010755 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102010756 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349102010757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010758 Walker A/P-loop; other site 349102010759 ATP binding site [chemical binding]; other site 349102010760 Q-loop/lid; other site 349102010761 ABC transporter signature motif; other site 349102010762 Walker B; other site 349102010763 D-loop; other site 349102010764 H-loop/switch region; other site 349102010765 TOBE domain; Region: TOBE_2; pfam08402 349102010766 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349102010767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102010768 DNA-binding site [nucleotide binding]; DNA binding site 349102010769 FCD domain; Region: FCD; pfam07729 349102010770 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 349102010771 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 349102010772 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102010773 catalytic residue [active] 349102010774 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 349102010775 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 349102010776 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 349102010777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102010778 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349102010779 Walker A/P-loop; other site 349102010780 ATP binding site [chemical binding]; other site 349102010781 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 349102010782 active sites [active] 349102010783 tetramer interface [polypeptide binding]; other site 349102010784 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 349102010785 active site 349102010786 homotetramer interface [polypeptide binding]; other site 349102010787 homodimer interface [polypeptide binding]; other site 349102010788 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 349102010789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102010790 DNA-binding site [nucleotide binding]; DNA binding site 349102010791 UTRA domain; Region: UTRA; pfam07702 349102010792 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349102010793 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 349102010794 Walker A/P-loop; other site 349102010795 ATP binding site [chemical binding]; other site 349102010796 Q-loop/lid; other site 349102010797 ABC transporter signature motif; other site 349102010798 Walker B; other site 349102010799 D-loop; other site 349102010800 H-loop/switch region; other site 349102010801 TOBE domain; Region: TOBE_2; pfam08402 349102010802 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 349102010803 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102010804 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 349102010805 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349102010806 substrate binding site [chemical binding]; other site 349102010807 ATP binding site [chemical binding]; other site 349102010808 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 349102010809 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102010810 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 349102010811 dimer interface [polypeptide binding]; other site 349102010812 conserved gate region; other site 349102010813 putative PBP binding loops; other site 349102010814 ABC-ATPase subunit interface; other site 349102010815 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349102010816 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 349102010817 dimer interface [polypeptide binding]; other site 349102010818 conserved gate region; other site 349102010819 putative PBP binding loops; other site 349102010820 ABC-ATPase subunit interface; other site 349102010821 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349102010822 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349102010823 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 349102010824 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349102010825 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349102010826 DNA binding site [nucleotide binding] 349102010827 domain linker motif; other site 349102010828 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349102010829 dimerization interface [polypeptide binding]; other site 349102010830 ligand binding site [chemical binding]; other site 349102010831 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349102010832 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 349102010833 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349102010834 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349102010835 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 349102010836 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349102010837 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 349102010838 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 349102010839 active site residue [active] 349102010840 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 349102010841 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349102010842 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 349102010843 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 349102010844 substrate binding pocket [chemical binding]; other site 349102010845 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 349102010846 B12 binding site [chemical binding]; other site 349102010847 cobalt ligand [ion binding]; other site 349102010848 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 349102010849 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349102010850 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349102010851 PAS domain; Region: PAS_9; pfam13426 349102010852 PAS domain; Region: PAS_9; pfam13426 349102010853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102010854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102010855 metal binding site [ion binding]; metal-binding site 349102010856 active site 349102010857 I-site; other site 349102010858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 349102010859 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 349102010860 PAS fold; Region: PAS_3; pfam08447 349102010861 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 349102010862 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 349102010863 putative active site [active] 349102010864 heme pocket [chemical binding]; other site 349102010865 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 349102010866 PAS fold; Region: PAS_3; pfam08447 349102010867 putative active site [active] 349102010868 heme pocket [chemical binding]; other site 349102010869 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102010870 HWE histidine kinase; Region: HWE_HK; smart00911 349102010871 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 349102010872 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349102010873 NAD binding site [chemical binding]; other site 349102010874 catalytic Zn binding site [ion binding]; other site 349102010875 structural Zn binding site [ion binding]; other site 349102010876 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 349102010877 putative hydrophobic ligand binding site [chemical binding]; other site 349102010878 CHASE4 domain; Region: CHASE4; pfam05228 349102010879 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102010880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102010881 metal binding site [ion binding]; metal-binding site 349102010882 active site 349102010883 I-site; other site 349102010884 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 349102010885 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 349102010886 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 349102010887 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 349102010888 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 349102010889 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 349102010890 D-pathway; other site 349102010891 Putative ubiquinol binding site [chemical binding]; other site 349102010892 Low-spin heme (heme b) binding site [chemical binding]; other site 349102010893 Putative water exit pathway; other site 349102010894 Binuclear center (heme o3/CuB) [ion binding]; other site 349102010895 K-pathway; other site 349102010896 Putative proton exit pathway; other site 349102010897 RNA polymerase sigma factor; Provisional; Region: PRK12511 349102010898 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349102010899 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 349102010900 DNA binding residues [nucleotide binding] 349102010901 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 349102010902 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 349102010903 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 349102010904 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 349102010905 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 349102010906 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 349102010907 Na binding site [ion binding]; other site 349102010908 Protein of unknown function, DUF485; Region: DUF485; pfam04341 349102010909 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 349102010910 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 349102010911 Subunit I/III interface [polypeptide binding]; other site 349102010912 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102010913 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 349102010914 active site 349102010915 phosphorylation site [posttranslational modification] 349102010916 intermolecular recognition site; other site 349102010917 dimerization interface [polypeptide binding]; other site 349102010918 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 349102010919 DNA binding site [nucleotide binding] 349102010920 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102010921 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 349102010922 dimer interface [polypeptide binding]; other site 349102010923 phosphorylation site [posttranslational modification] 349102010924 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 349102010925 ATP binding site [chemical binding]; other site 349102010926 Mg2+ binding site [ion binding]; other site 349102010927 G-X-G motif; other site 349102010928 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349102010929 HAMP domain; Region: HAMP; pfam00672 349102010930 dimerization interface [polypeptide binding]; other site 349102010931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102010932 dimer interface [polypeptide binding]; other site 349102010933 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 349102010934 putative CheW interface [polypeptide binding]; other site 349102010935 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 349102010936 hypothetical protein; Provisional; Region: PRK07483 349102010937 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 349102010938 inhibitor-cofactor binding pocket; inhibition site 349102010939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102010940 catalytic residue [active] 349102010941 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 349102010942 Ligand Binding Site [chemical binding]; other site 349102010943 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 349102010944 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 349102010945 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349102010946 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349102010947 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 349102010948 putative active site [active] 349102010949 ParB-like nuclease domain; Region: ParBc; pfam02195 349102010950 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 349102010951 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 349102010952 P-loop; other site 349102010953 Magnesium ion binding site [ion binding]; other site 349102010954 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 349102010955 Magnesium ion binding site [ion binding]; other site 349102010956 Initiator Replication protein; Region: Rep_3; pfam01051 349102010957 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 349102010958 5' RNA guide strand anchoring site; other site 349102010959 active site 349102010960 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102010961 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102010962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102010963 Transposase; Region: HTH_Tnp_1; pfam01527 349102010964 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102010965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010966 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102010967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010968 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102010969 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102010970 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102010971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102010972 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102010973 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102010974 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 349102010975 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102010976 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 349102010977 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 349102010978 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 349102010979 catalytic residue [active] 349102010980 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 349102010981 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 349102010982 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 349102010983 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 349102010984 NlpC/P60 family; Region: NLPC_P60; cl17555 349102010985 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 349102010986 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349102010987 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102010988 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010989 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102010990 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102010991 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102010992 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102010993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102010994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102010995 Transposase; Region: HTH_Tnp_1; pfam01527 349102010996 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 349102010997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102010998 Transposase; Region: HTH_Tnp_1; pfam01527 349102010999 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102011000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102011001 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102011002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102011003 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102011004 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102011005 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102011006 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102011007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102011008 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102011009 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102011010 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102011011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102011012 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102011013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102011014 Transposase; Region: HTH_Tnp_1; pfam01527 349102011015 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 349102011016 GIY-YIG motif/motif A; other site 349102011017 putative active site [active] 349102011018 putative metal binding site [ion binding]; other site 349102011019 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 349102011020 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 349102011021 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 349102011022 TIGR02687 family protein; Region: TIGR02687 349102011023 PglZ domain; Region: PglZ; pfam08665 349102011024 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 349102011025 AAA domain; Region: AAA_21; pfam13304 349102011026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102011027 Walker B; other site 349102011028 D-loop; other site 349102011029 H-loop/switch region; other site 349102011030 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 349102011031 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 349102011032 WYL domain; Region: WYL; pfam13280 349102011033 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 349102011034 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 349102011035 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 349102011036 active site 349102011037 DNA binding site [nucleotide binding] 349102011038 Int/Topo IB signature motif; other site 349102011039 Transposase [DNA replication, recombination, and repair]; Region: COG5421 349102011040 Winged helix-turn helix; Region: HTH_29; pfam13551 349102011041 Integrase core domain; Region: rve; pfam00665 349102011042 Integrase core domain; Region: rve_3; pfam13683 349102011043 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 349102011044 putative uracil binding site [chemical binding]; other site 349102011045 putative active site [active] 349102011046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 349102011047 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 349102011048 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 349102011049 active site 349102011050 metal binding site [ion binding]; metal-binding site 349102011051 interdomain interaction site; other site 349102011052 helicase superfamily c-terminal domain; Region: HELICc; smart00490 349102011053 ATP-binding site [chemical binding]; other site 349102011054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102011055 Walker A/P-loop; other site 349102011056 ATP binding site [chemical binding]; other site 349102011057 Q-loop/lid; other site 349102011058 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349102011059 acyl-CoA synthetase; Validated; Region: PRK08162 349102011060 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 349102011061 acyl-activating enzyme (AAE) consensus motif; other site 349102011062 putative active site [active] 349102011063 AMP binding site [chemical binding]; other site 349102011064 putative CoA binding site [chemical binding]; other site 349102011065 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349102011066 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 349102011067 dimerization interface [polypeptide binding]; other site 349102011068 putative DNA binding site [nucleotide binding]; other site 349102011069 putative Zn2+ binding site [ion binding]; other site 349102011070 AsnC family; Region: AsnC_trans_reg; pfam01037 349102011071 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 349102011072 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349102011073 Walker A/P-loop; other site 349102011074 ATP binding site [chemical binding]; other site 349102011075 Q-loop/lid; other site 349102011076 ABC transporter signature motif; other site 349102011077 Walker B; other site 349102011078 D-loop; other site 349102011079 H-loop/switch region; other site 349102011080 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 349102011081 dimer interface [polypeptide binding]; other site 349102011082 conserved gate region; other site 349102011083 putative PBP binding loops; other site 349102011084 ABC-ATPase subunit interface; other site 349102011085 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349102011086 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 349102011087 dimer interface [polypeptide binding]; other site 349102011088 conserved gate region; other site 349102011089 putative PBP binding loops; other site 349102011090 ABC-ATPase subunit interface; other site 349102011091 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 349102011092 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349102011093 Rrf2 family protein; Region: rrf2_super; TIGR00738 349102011094 Transcriptional regulator; Region: Rrf2; pfam02082 349102011095 Transcriptional regulator; Region: Rrf2; cl17282 349102011096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102011097 Transposase; Region: HTH_Tnp_1; pfam01527 349102011098 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102011099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102011100 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102011101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102011102 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102011103 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102011104 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102011105 Transposase, Mutator family; Region: Transposase_mut; pfam00872 349102011106 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 349102011107 DNA-binding interface [nucleotide binding]; DNA binding site 349102011108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349102011109 Integrase core domain; Region: rve; pfam00665 349102011110 Integrase core domain; Region: rve_3; pfam13683 349102011111 Integrase core domain; Region: rve_3; cl15866 349102011112 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 349102011113 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 349102011114 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 349102011115 PhnA protein; Region: PhnA; pfam03831 349102011116 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 349102011117 Domain of unknown function (DUF305); Region: DUF305; cl17794 349102011118 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102011119 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102011120 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102011121 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 349102011122 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 349102011123 dimerization interface [polypeptide binding]; other site 349102011124 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 349102011125 dimer interface [polypeptide binding]; other site 349102011126 phosphorylation site [posttranslational modification] 349102011127 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 349102011128 ATP binding site [chemical binding]; other site 349102011129 Mg2+ binding site [ion binding]; other site 349102011130 G-X-G motif; other site 349102011131 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349102011132 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102011133 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102011134 Walker A/P-loop; other site 349102011135 ATP binding site [chemical binding]; other site 349102011136 Q-loop/lid; other site 349102011137 ABC transporter signature motif; other site 349102011138 Walker B; other site 349102011139 D-loop; other site 349102011140 H-loop/switch region; other site 349102011141 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 349102011142 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349102011143 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 349102011144 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 349102011145 K+-transporting ATPase, c chain; Region: KdpC; cl00944 349102011146 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102011147 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 349102011148 active site 349102011149 phosphorylation site [posttranslational modification] 349102011150 intermolecular recognition site; other site 349102011151 dimerization interface [polypeptide binding]; other site 349102011152 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 349102011153 DNA binding site [nucleotide binding] 349102011154 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102011155 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102011156 Integrase core domain; Region: rve_3; cl15866 349102011157 Fic family protein [Function unknown]; Region: COG3177 349102011158 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 349102011159 Fic/DOC family; Region: Fic; pfam02661 349102011160 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102011161 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102011162 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 349102011163 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 349102011164 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 349102011165 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 349102011166 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349102011167 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349102011168 GTPase CgtA; Reviewed; Region: obgE; PRK12299 349102011169 GTP1/OBG; Region: GTP1_OBG; pfam01018 349102011170 Obg GTPase; Region: Obg; cd01898 349102011171 G1 box; other site 349102011172 GTP/Mg2+ binding site [chemical binding]; other site 349102011173 Switch I region; other site 349102011174 G2 box; other site 349102011175 G3 box; other site 349102011176 Switch II region; other site 349102011177 G4 box; other site 349102011178 G5 box; other site 349102011179 gamma-glutamyl kinase; Provisional; Region: PRK05429 349102011180 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 349102011181 nucleotide binding site [chemical binding]; other site 349102011182 homotetrameric interface [polypeptide binding]; other site 349102011183 putative phosphate binding site [ion binding]; other site 349102011184 putative allosteric binding site; other site 349102011185 PUA domain; Region: PUA; pfam01472 349102011186 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 349102011187 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 349102011188 putative catalytic cysteine [active] 349102011189 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 349102011190 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 349102011191 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 349102011192 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349102011193 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349102011194 putative acyl-acceptor binding pocket; other site 349102011195 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 349102011196 thiamine phosphate binding site [chemical binding]; other site 349102011197 active site 349102011198 pyrophosphate binding site [ion binding]; other site 349102011199 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 349102011200 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 349102011201 EthD domain; Region: EthD; cl17553 349102011202 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 349102011203 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 349102011204 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 349102011205 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 349102011206 active site 349102011207 Zn binding site [ion binding]; other site 349102011208 enoyl-CoA hydratase; Validated; Region: PRK08139 349102011209 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 349102011210 substrate binding site [chemical binding]; other site 349102011211 oxyanion hole (OAH) forming residues; other site 349102011212 trimer interface [polypeptide binding]; other site 349102011213 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349102011214 CoenzymeA binding site [chemical binding]; other site 349102011215 subunit interaction site [polypeptide binding]; other site 349102011216 PHB binding site; other site 349102011217 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 349102011218 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 349102011219 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102011220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102011221 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102011222 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 349102011223 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 349102011224 active site 349102011225 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102011226 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102011227 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102011228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349102011229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102011230 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 349102011231 putative effector binding pocket; other site 349102011232 putative dimerization interface [polypeptide binding]; other site 349102011233 SnoaL-like domain; Region: SnoaL_2; pfam12680 349102011234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102011235 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102011236 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102011237 Transposase [DNA replication, recombination, and repair]; Region: COG5421 349102011238 Homeodomain-like domain; Region: HTH_32; pfam13565 349102011239 Integrase core domain; Region: rve; pfam00665 349102011240 DDE domain; Region: DDE_Tnp_IS240; pfam13610 349102011241 Integrase core domain; Region: rve_3; pfam13683 349102011242 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; cl00250 349102011243 30S subunit binding site; other site 349102011244 Protein of unknown function (DUF421); Region: DUF421; cl00990 349102011245 Hemerythrin-like domain; Region: Hr-like; cd12108 349102011246 putative recombination protein RecB; Provisional; Region: PRK13909 349102011247 Winged helix-turn helix; Region: HTH_29; pfam13551 349102011248 Integrase core domain; Region: rve; pfam00665 349102011249 Integrase core domain; Region: rve_3; pfam13683 349102011250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102011251 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102011252 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 349102011253 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 349102011254 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102011255 catalytic residue [active] 349102011256 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 349102011257 putative trimer interface [polypeptide binding]; other site 349102011258 putative CoA binding site [chemical binding]; other site 349102011259 WbqC-like protein family; Region: WbqC; pfam08889 349102011260 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 349102011261 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 349102011262 S-adenosylmethionine binding site [chemical binding]; other site 349102011263 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 349102011264 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 349102011265 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 349102011266 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 349102011267 B12 binding site [chemical binding]; other site 349102011268 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 349102011269 FeS/SAM binding site; other site 349102011270 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 349102011271 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102011272 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102011273 Transposase [DNA replication, recombination, and repair]; Region: COG5421 349102011274 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 349102011275 ParB-like nuclease domain; Region: ParBc; cl02129 349102011276 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349102011277 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 349102011278 catalytic residues [active] 349102011279 catalytic nucleophile [active] 349102011280 Recombinase; Region: Recombinase; pfam07508 349102011281 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 349102011282 FeoA domain; Region: FeoA; cl00838 349102011283 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 349102011284 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 349102011285 G1 box; other site 349102011286 GTP/Mg2+ binding site [chemical binding]; other site 349102011287 Switch I region; other site 349102011288 G2 box; other site 349102011289 G3 box; other site 349102011290 Switch II region; other site 349102011291 G4 box; other site 349102011292 G5 box; other site 349102011293 Nucleoside recognition; Region: Gate; pfam07670 349102011294 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 349102011295 FeoC like transcriptional regulator; Region: FeoC; pfam09012 349102011296 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 349102011297 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 349102011298 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 349102011299 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 349102011300 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 349102011301 Uncharacterized conserved protein [Function unknown]; Region: COG2128 349102011302 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 349102011303 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 349102011304 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 349102011305 NADP binding site [chemical binding]; other site 349102011306 dimer interface [polypeptide binding]; other site 349102011307 Bacterial SH3 domain; Region: SH3_3; pfam08239 349102011308 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 349102011309 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349102011310 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349102011311 HlyD family secretion protein; Region: HlyD_3; pfam13437 349102011312 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349102011313 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349102011314 Walker A/P-loop; other site 349102011315 ATP binding site [chemical binding]; other site 349102011316 Q-loop/lid; other site 349102011317 ABC transporter signature motif; other site 349102011318 Walker B; other site 349102011319 D-loop; other site 349102011320 H-loop/switch region; other site 349102011321 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349102011322 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 349102011323 FtsX-like permease family; Region: FtsX; pfam02687 349102011324 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349102011325 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349102011326 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 349102011327 DctM-like transporters; Region: DctM; pfam06808 349102011328 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349102011329 Amidase; Region: Amidase; cl11426 349102011330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 349102011331 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349102011332 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 349102011333 FeS/SAM binding site; other site 349102011334 TRAM domain; Region: TRAM; cl01282 349102011335 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 349102011336 PhoH-like protein; Region: PhoH; pfam02562 349102011337 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 349102011338 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 349102011339 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 349102011340 Transporter associated domain; Region: CorC_HlyC; smart01091 349102011341 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 349102011342 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 349102011343 putative active site [active] 349102011344 catalytic triad [active] 349102011345 putative dimer interface [polypeptide binding]; other site 349102011346 S-adenosylmethionine synthetase; Validated; Region: PRK05250 349102011347 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 349102011348 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 349102011349 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 349102011350 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 349102011351 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102011352 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 349102011353 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 349102011354 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 349102011355 hinge; other site 349102011356 active site 349102011357 cytidylate kinase; Provisional; Region: cmk; PRK00023 349102011358 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 349102011359 CMP-binding site; other site 349102011360 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 349102011361 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 349102011362 RNA binding site [nucleotide binding]; other site 349102011363 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 349102011364 RNA binding site [nucleotide binding]; other site 349102011365 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 349102011366 RNA binding site [nucleotide binding]; other site 349102011367 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 349102011368 RNA binding site [nucleotide binding]; other site 349102011369 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 349102011370 RNA binding site [nucleotide binding]; other site 349102011371 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 349102011372 RNA binding site [nucleotide binding]; other site 349102011373 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 349102011374 IHF dimer interface [polypeptide binding]; other site 349102011375 IHF - DNA interface [nucleotide binding]; other site 349102011376 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 349102011377 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 349102011378 active site 349102011379 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349102011380 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 349102011381 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 349102011382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349102011383 catalytic residue [active] 349102011384 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 349102011385 Predicted membrane protein [Function unknown]; Region: COG3748 349102011386 Protein of unknown function (DUF989); Region: DUF989; pfam06181 349102011387 Cytochrome c; Region: Cytochrom_C; pfam00034 349102011388 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 349102011389 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349102011390 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 349102011391 dimerization interface [polypeptide binding]; other site 349102011392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102011393 dimer interface [polypeptide binding]; other site 349102011394 putative CheW interface [polypeptide binding]; other site 349102011395 serine O-acetyltransferase; Region: cysE; TIGR01172 349102011396 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 349102011397 trimer interface [polypeptide binding]; other site 349102011398 active site 349102011399 substrate binding site [chemical binding]; other site 349102011400 CoA binding site [chemical binding]; other site 349102011401 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349102011402 classical (c) SDRs; Region: SDR_c; cd05233 349102011403 NAD(P) binding site [chemical binding]; other site 349102011404 active site 349102011405 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349102011406 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102011407 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349102011408 acyl-activating enzyme (AAE) consensus motif; other site 349102011409 acyl-activating enzyme (AAE) consensus motif; other site 349102011410 active site 349102011411 AMP binding site [chemical binding]; other site 349102011412 CoA binding site [chemical binding]; other site 349102011413 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 349102011414 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349102011415 Predicted periplasmic protein [Function unknown]; Region: COG3904 349102011416 short chain dehydrogenase; Provisional; Region: PRK12829 349102011417 classical (c) SDRs; Region: SDR_c; cd05233 349102011418 NAD(P) binding site [chemical binding]; other site 349102011419 active site 349102011420 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349102011421 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102011422 DNA-binding site [nucleotide binding]; DNA binding site 349102011423 FCD domain; Region: FCD; pfam07729 349102011424 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349102011425 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 349102011426 putative ligand binding site [chemical binding]; other site 349102011427 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 349102011428 TM-ABC transporter signature motif; other site 349102011429 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 349102011430 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349102011431 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349102011432 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 349102011433 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 349102011434 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 349102011435 MOFRL family; Region: MOFRL; pfam05161 349102011436 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 349102011437 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349102011438 NAD(P) binding site [chemical binding]; other site 349102011439 putative active site [active] 349102011440 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 349102011441 Sulphur transport; Region: Sulf_transp; pfam04143 349102011442 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349102011443 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 349102011444 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 349102011445 Cytochrome c; Region: Cytochrom_C; pfam00034 349102011446 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 349102011447 Moco binding site; other site 349102011448 metal coordination site [ion binding]; other site 349102011449 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 349102011450 active site 349102011451 metal binding site [ion binding]; metal-binding site 349102011452 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 349102011453 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349102011454 Cytochrome c [Energy production and conversion]; Region: COG3258 349102011455 Cytochrome c [Energy production and conversion]; Region: COG3258 349102011456 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 349102011457 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 349102011458 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 349102011459 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 349102011460 Cytochrome c; Region: Cytochrom_C; pfam00034 349102011461 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 349102011462 catalytic residues [active] 349102011463 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 349102011464 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 349102011465 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349102011466 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 349102011467 dimerization interface [polypeptide binding]; other site 349102011468 putative DNA binding site [nucleotide binding]; other site 349102011469 putative Zn2+ binding site [ion binding]; other site 349102011470 Sulphur transport; Region: Sulf_transp; pfam04143 349102011471 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349102011472 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 349102011473 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 349102011474 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 349102011475 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 349102011476 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 349102011477 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 349102011478 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 349102011479 BCCT family transporter; Region: BCCT; pfam02028 349102011480 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 349102011481 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 349102011482 FeS/SAM binding site; other site 349102011483 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 349102011484 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 349102011485 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 349102011486 FAD binding pocket [chemical binding]; other site 349102011487 FAD binding motif [chemical binding]; other site 349102011488 phosphate binding motif [ion binding]; other site 349102011489 NAD binding pocket [chemical binding]; other site 349102011490 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349102011491 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349102011492 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349102011493 Walker A/P-loop; other site 349102011494 ATP binding site [chemical binding]; other site 349102011495 Q-loop/lid; other site 349102011496 ABC transporter signature motif; other site 349102011497 Walker B; other site 349102011498 D-loop; other site 349102011499 H-loop/switch region; other site 349102011500 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 349102011501 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 349102011502 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349102011503 NAD binding site [chemical binding]; other site 349102011504 homotetramer interface [polypeptide binding]; other site 349102011505 homodimer interface [polypeptide binding]; other site 349102011506 substrate binding site [chemical binding]; other site 349102011507 active site 349102011508 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 349102011509 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 349102011510 dimer interface [polypeptide binding]; other site 349102011511 active site 349102011512 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 349102011513 active site 1 [active] 349102011514 dimer interface [polypeptide binding]; other site 349102011515 active site 2 [active] 349102011516 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349102011517 metal binding site 2 [ion binding]; metal-binding site 349102011518 putative DNA binding helix; other site 349102011519 metal binding site 1 [ion binding]; metal-binding site 349102011520 dimer interface [polypeptide binding]; other site 349102011521 structural Zn2+ binding site [ion binding]; other site 349102011522 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349102011523 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349102011524 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349102011525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102011526 NAD(P) binding site [chemical binding]; other site 349102011527 active site 349102011528 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 349102011529 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 349102011530 dimer interface [polypeptide binding]; other site 349102011531 active site 349102011532 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 349102011533 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 349102011534 putative ligand binding site [chemical binding]; other site 349102011535 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102011536 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349102011537 TM-ABC transporter signature motif; other site 349102011538 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349102011539 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349102011540 TM-ABC transporter signature motif; other site 349102011541 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349102011542 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349102011543 Walker A/P-loop; other site 349102011544 ATP binding site [chemical binding]; other site 349102011545 Q-loop/lid; other site 349102011546 ABC transporter signature motif; other site 349102011547 Walker B; other site 349102011548 D-loop; other site 349102011549 H-loop/switch region; other site 349102011550 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349102011551 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 349102011552 XdhC Rossmann domain; Region: XdhC_C; pfam13478 349102011553 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 349102011554 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 349102011555 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349102011556 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349102011557 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 349102011558 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 349102011559 catalytic loop [active] 349102011560 iron binding site [ion binding]; other site 349102011561 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349102011562 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 349102011563 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 349102011564 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 349102011565 putative active site [active] 349102011566 putative PHP Thumb interface [polypeptide binding]; other site 349102011567 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 349102011568 generic binding surface II; other site 349102011569 generic binding surface I; other site 349102011570 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 349102011571 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 349102011572 dimer interface [polypeptide binding]; other site 349102011573 motif 1; other site 349102011574 active site 349102011575 motif 2; other site 349102011576 motif 3; other site 349102011577 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 349102011578 anticodon binding site; other site 349102011579 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 349102011580 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 349102011581 active site 349102011582 dimer interface [polypeptide binding]; other site 349102011583 motif 2; other site 349102011584 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 349102011585 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 349102011586 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 349102011587 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 349102011588 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 349102011589 active site 349102011590 catalytic triad [active] 349102011591 oxyanion hole [active] 349102011592 switch loop; other site 349102011593 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 349102011594 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349102011595 Walker A/P-loop; other site 349102011596 ATP binding site [chemical binding]; other site 349102011597 Q-loop/lid; other site 349102011598 ABC transporter signature motif; other site 349102011599 Walker B; other site 349102011600 D-loop; other site 349102011601 H-loop/switch region; other site 349102011602 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 349102011603 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 349102011604 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349102011605 murein hydrolase B; Provisional; Region: PRK10760; cl17906 349102011606 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102011607 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 349102011608 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349102011609 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 349102011610 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102011611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102011612 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102011613 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 349102011614 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349102011615 peptide binding site [polypeptide binding]; other site 349102011616 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349102011617 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 349102011618 dimer interface [polypeptide binding]; other site 349102011619 conserved gate region; other site 349102011620 putative PBP binding loops; other site 349102011621 ABC-ATPase subunit interface; other site 349102011622 dipeptide transporter; Provisional; Region: PRK10913 349102011623 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 349102011624 dimer interface [polypeptide binding]; other site 349102011625 conserved gate region; other site 349102011626 putative PBP binding loops; other site 349102011627 ABC-ATPase subunit interface; other site 349102011628 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349102011629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102011630 Walker A/P-loop; other site 349102011631 ATP binding site [chemical binding]; other site 349102011632 Q-loop/lid; other site 349102011633 ABC transporter signature motif; other site 349102011634 Walker B; other site 349102011635 D-loop; other site 349102011636 H-loop/switch region; other site 349102011637 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 349102011638 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349102011639 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349102011640 Walker A/P-loop; other site 349102011641 ATP binding site [chemical binding]; other site 349102011642 Q-loop/lid; other site 349102011643 ABC transporter signature motif; other site 349102011644 Walker B; other site 349102011645 D-loop; other site 349102011646 H-loop/switch region; other site 349102011647 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349102011648 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349102011649 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 349102011650 dimer interface [polypeptide binding]; other site 349102011651 active site 349102011652 metal binding site [ion binding]; metal-binding site 349102011653 glutathione binding site [chemical binding]; other site 349102011654 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349102011655 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349102011656 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 349102011657 dimerization interface [polypeptide binding]; other site 349102011658 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 349102011659 dimer interface [polypeptide binding]; other site 349102011660 phosphorylation site [posttranslational modification] 349102011661 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 349102011662 ATP binding site [chemical binding]; other site 349102011663 Mg2+ binding site [ion binding]; other site 349102011664 G-X-G motif; other site 349102011665 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102011666 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 349102011667 active site 349102011668 phosphorylation site [posttranslational modification] 349102011669 intermolecular recognition site; other site 349102011670 dimerization interface [polypeptide binding]; other site 349102011671 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 349102011672 DNA binding site [nucleotide binding] 349102011673 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 349102011674 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349102011675 classical (c) SDRs; Region: SDR_c; cd05233 349102011676 NAD(P) binding site [chemical binding]; other site 349102011677 active site 349102011678 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349102011679 FAD binding domain; Region: FAD_binding_4; pfam01565 349102011680 GtrA-like protein; Region: GtrA; pfam04138 349102011681 hypothetical protein; Validated; Region: PRK08238 349102011682 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 349102011683 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 349102011684 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349102011685 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 349102011686 S-adenosylmethionine binding site [chemical binding]; other site 349102011687 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 349102011688 ferredoxin-type protein; Provisional; Region: PRK10194 349102011689 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 349102011690 NapD protein; Region: NapD; pfam03927 349102011691 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 349102011692 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 349102011693 [4Fe-4S] binding site [ion binding]; other site 349102011694 molybdopterin cofactor binding site; other site 349102011695 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 349102011696 molybdopterin cofactor binding site; other site 349102011697 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 349102011698 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 349102011699 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 349102011700 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 349102011701 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349102011702 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 349102011703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102011704 Q-loop/lid; other site 349102011705 ABC transporter signature motif; other site 349102011706 Walker B; other site 349102011707 D-loop; other site 349102011708 H-loop/switch region; other site 349102011709 ABC-2 type transporter; Region: ABC2_membrane; cl17235 349102011710 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 349102011711 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 349102011712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102011713 UDP-galactopyranose mutase; Region: GLF; pfam03275 349102011714 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 349102011715 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 349102011716 active site 349102011717 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 349102011718 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 349102011719 FMN binding site [chemical binding]; other site 349102011720 dimer interface [polypeptide binding]; other site 349102011721 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 349102011722 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 349102011723 active site 349102011724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 349102011725 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 349102011726 Integrase core domain; Region: rve_3; pfam13683 349102011727 Homeodomain-like domain; Region: HTH_32; pfam13565 349102011728 Integrase core domain; Region: rve; pfam00665 349102011729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102011730 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102011731 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102011732 Transposase; Region: HTH_Tnp_1; cl17663 349102011733 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349102011734 active site 349102011735 KMSKS motif; other site 349102011736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102011737 active site 349102011738 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102011739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102011740 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349102011741 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 349102011742 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 349102011743 AMP binding site [chemical binding]; other site 349102011744 fructose-1,6-bisphosphatase family protein; Region: PLN02628 349102011745 metal binding site [ion binding]; metal-binding site 349102011746 active site 349102011747 phosphoribulokinase; Provisional; Region: PRK15453 349102011748 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 349102011749 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 349102011750 TPP-binding site [chemical binding]; other site 349102011751 dimer interface [polypeptide binding]; other site 349102011752 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 349102011753 PYR/PP interface [polypeptide binding]; other site 349102011754 dimer interface [polypeptide binding]; other site 349102011755 TPP binding site [chemical binding]; other site 349102011756 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349102011757 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 349102011758 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 349102011759 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 349102011760 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 349102011761 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 349102011762 intersubunit interface [polypeptide binding]; other site 349102011763 active site 349102011764 zinc binding site [ion binding]; other site 349102011765 Na+ binding site [ion binding]; other site 349102011766 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 349102011767 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 349102011768 dimer interface [polypeptide binding]; other site 349102011769 active site 349102011770 catalytic residue [active] 349102011771 metal binding site [ion binding]; metal-binding site 349102011772 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 349102011773 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102011774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102011775 Transposase; Region: HTH_Tnp_1; pfam01527 349102011776 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 349102011777 Transposase, Mutator family; Region: Transposase_mut; pfam00872 349102011778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102011779 Transposase; Region: HTH_Tnp_1; pfam01527 349102011780 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 349102011781 YtkA-like; Region: YtkA; pfam13115 349102011782 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349102011783 Sel1-like repeats; Region: SEL1; smart00671 349102011784 Sel1 repeat; Region: Sel1; cl02723 349102011785 Sel1-like repeats; Region: SEL1; smart00671 349102011786 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349102011787 Sel1-like repeats; Region: SEL1; smart00671 349102011788 Autotransporter beta-domain; Region: Autotransporter; smart00869 349102011789 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 349102011790 Autotransporter beta-domain; Region: Autotransporter; pfam03797 349102011791 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 349102011792 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 349102011793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349102011794 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349102011795 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349102011796 trimer interface [polypeptide binding]; other site 349102011797 active site 349102011798 Transposase domain (DUF772); Region: DUF772; pfam05598 349102011799 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 349102011800 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349102011801 FAD dependent oxidoreductase; Region: DAO; pfam01266 349102011802 GtrA-like protein; Region: GtrA; pfam04138 349102011803 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 349102011804 Ligand binding site; other site 349102011805 Putative Catalytic site; other site 349102011806 DXD motif; other site 349102011807 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349102011808 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 349102011809 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349102011810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 349102011811 Virulence factor SrfB; Region: SrfB; pfam07520 349102011812 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349102011813 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 349102011814 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 349102011815 metal ion-dependent adhesion site (MIDAS); other site 349102011816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102011817 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349102011818 Walker A/P-loop; other site 349102011819 ATP binding site [chemical binding]; other site 349102011820 Q-loop/lid; other site 349102011821 ABC transporter signature motif; other site 349102011822 Walker B; other site 349102011823 D-loop; other site 349102011824 H-loop/switch region; other site 349102011825 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 349102011826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102011827 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 349102011828 dimerization interface [polypeptide binding]; other site 349102011829 Domain of unknown function (DUF897); Region: DUF897; cl01312 349102011830 Domain of unknown function (DUF897); Region: DUF897; cl01312 349102011831 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 349102011832 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102011833 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 349102011834 putative dimerization interface [polypeptide binding]; other site 349102011835 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 349102011836 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 349102011837 dimer interface [polypeptide binding]; other site 349102011838 catalytic residue [active] 349102011839 metal binding site [ion binding]; metal-binding site 349102011840 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 349102011841 multimerization interface [polypeptide binding]; other site 349102011842 MoxR-like ATPases [General function prediction only]; Region: COG0714 349102011843 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 349102011844 Walker A motif; other site 349102011845 ATP binding site [chemical binding]; other site 349102011846 Walker B motif; other site 349102011847 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 349102011848 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 349102011849 metal ion-dependent adhesion site (MIDAS); other site 349102011850 N-terminal Putative NodB-like catalytic domain of hypothetical proteins containing C-terminal cadherin or MopE copper binding domains; Region: CE4_cadherin_MopE_like_N; cd10934 349102011851 NodB motif; other site 349102011852 putative active site [active] 349102011853 putative catalytic site [active] 349102011854 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 349102011855 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 349102011856 glutaminase active site [active] 349102011857 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 349102011858 dimer interface [polypeptide binding]; other site 349102011859 active site 349102011860 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 349102011861 dimer interface [polypeptide binding]; other site 349102011862 active site 349102011863 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 349102011864 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349102011865 NAD binding site [chemical binding]; other site 349102011866 homodimer interface [polypeptide binding]; other site 349102011867 active site 349102011868 substrate binding site [chemical binding]; other site 349102011869 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 349102011870 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 349102011871 putative active site [active] 349102011872 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349102011873 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 349102011874 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 349102011875 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349102011876 Predicted membrane protein [Function unknown]; Region: COG4267 349102011877 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102011878 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 349102011879 DNA binding residues [nucleotide binding] 349102011880 dimerization interface [polypeptide binding]; other site 349102011881 TM1410 hypothetical-related protein; Region: DUF297; cl00997 349102011882 Flagellar protein FlbT; Region: FlbT; cl11455 349102011883 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 349102011884 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 349102011885 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349102011886 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349102011887 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 349102011888 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349102011889 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 349102011890 dimer interface [polypeptide binding]; other site 349102011891 conserved gate region; other site 349102011892 putative PBP binding loops; other site 349102011893 ABC-ATPase subunit interface; other site 349102011894 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 349102011895 dimer interface [polypeptide binding]; other site 349102011896 conserved gate region; other site 349102011897 putative PBP binding loops; other site 349102011898 ABC-ATPase subunit interface; other site 349102011899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102011900 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349102011901 Walker A/P-loop; other site 349102011902 ATP binding site [chemical binding]; other site 349102011903 Q-loop/lid; other site 349102011904 ABC transporter signature motif; other site 349102011905 Walker B; other site 349102011906 D-loop; other site 349102011907 H-loop/switch region; other site 349102011908 transcriptional activator RfaH; Region: RfaH; TIGR01955 349102011909 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 349102011910 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 349102011911 heterodimer interface [polypeptide binding]; other site 349102011912 homodimer interface [polypeptide binding]; other site 349102011913 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 349102011914 Mg++ binding site [ion binding]; other site 349102011915 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 349102011916 putative catalytic motif [active] 349102011917 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349102011918 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 349102011919 SLBB domain; Region: SLBB; pfam10531 349102011920 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349102011921 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349102011922 active site 349102011923 tyrosine kinase; Provisional; Region: PRK11519 349102011924 Chain length determinant protein; Region: Wzz; pfam02706 349102011925 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 349102011926 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 349102011927 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 349102011928 Substrate binding site; other site 349102011929 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 349102011930 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 349102011931 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 349102011932 active site 349102011933 substrate binding site [chemical binding]; other site 349102011934 metal binding site [ion binding]; metal-binding site 349102011935 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 349102011936 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349102011937 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349102011938 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 349102011939 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349102011940 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 349102011941 putative NAD(P) binding site [chemical binding]; other site 349102011942 active site 349102011943 putative substrate binding site [chemical binding]; other site 349102011944 tyrosine kinase; Provisional; Region: PRK11519 349102011945 Chain length determinant protein; Region: Wzz; cl15801 349102011946 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 349102011947 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 349102011948 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 349102011949 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 349102011950 Sensors of blue-light using FAD; Region: BLUF; pfam04940 349102011951 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 349102011952 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 349102011953 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 349102011954 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 349102011955 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 349102011956 Transposase; Region: HTH_Tnp_1; pfam01527 349102011957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102011958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102011959 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 349102011960 ATP binding site [chemical binding]; other site 349102011961 Mg2+ binding site [ion binding]; other site 349102011962 G-X-G motif; other site 349102011963 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 349102011964 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 349102011965 FAD binding pocket [chemical binding]; other site 349102011966 FAD binding motif [chemical binding]; other site 349102011967 phosphate binding motif [ion binding]; other site 349102011968 beta-alpha-beta structure motif; other site 349102011969 NAD binding pocket [chemical binding]; other site 349102011970 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 349102011971 DNA-binding interface [nucleotide binding]; DNA binding site 349102011972 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 349102011973 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 349102011974 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 349102011975 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102011976 DDE superfamily endonuclease; Region: DDE_4; cl17710 349102011977 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102011978 putative addiction module antidote; Region: doc_partner; TIGR02609 349102011979 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 349102011980 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 349102011981 dinuclear metal binding motif [ion binding]; other site 349102011982 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 349102011983 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 349102011984 active site 349102011985 trimer interface [polypeptide binding]; other site 349102011986 allosteric site; other site 349102011987 active site lid [active] 349102011988 hexamer (dimer of trimers) interface [polypeptide binding]; other site 349102011989 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 349102011990 PAS fold; Region: PAS_4; pfam08448 349102011991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102011992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102011993 metal binding site [ion binding]; metal-binding site 349102011994 active site 349102011995 I-site; other site 349102011996 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 349102011997 H-NS histone family; Region: Histone_HNS; pfam00816 349102011998 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 349102011999 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 349102012000 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349102012001 putative active site [active] 349102012002 putative metal binding site [ion binding]; other site 349102012003 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 349102012004 HTH-like domain; Region: HTH_21; pfam13276 349102012005 Integrase core domain; Region: rve; pfam00665 349102012006 Integrase core domain; Region: rve_3; pfam13683 349102012007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102012008 Transposase; Region: HTH_Tnp_1; cl17663 349102012009 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349102012010 active site 349102012011 metal binding site [ion binding]; metal-binding site 349102012012 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 349102012013 non-specific DNA binding site [nucleotide binding]; other site 349102012014 salt bridge; other site 349102012015 sequence-specific DNA binding site [nucleotide binding]; other site 349102012016 HipA N-terminal domain; Region: Couple_hipA; pfam13657 349102012017 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 349102012018 HipA-like N-terminal domain; Region: HipA_N; pfam07805 349102012019 HipA-like C-terminal domain; Region: HipA_C; pfam07804 349102012020 HipA N-terminal domain; Region: Couple_hipA; pfam13657 349102012021 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 349102012022 HipA-like N-terminal domain; Region: HipA_N; pfam07805 349102012023 HipA-like C-terminal domain; Region: HipA_C; pfam07804 349102012024 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 349102012025 non-specific DNA binding site [nucleotide binding]; other site 349102012026 salt bridge; other site 349102012027 sequence-specific DNA binding site [nucleotide binding]; other site 349102012028 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 349102012029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 349102012030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 349102012031 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102012032 H-NS histone family; Region: Histone_HNS; pfam00816 349102012033 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 349102012034 PAS fold; Region: PAS; pfam00989 349102012035 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 349102012036 putative active site [active] 349102012037 heme pocket [chemical binding]; other site 349102012038 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349102012039 Histidine kinase; Region: HisKA_2; pfam07568 349102012040 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 349102012041 ATP binding site [chemical binding]; other site 349102012042 Mg2+ binding site [ion binding]; other site 349102012043 G-X-G motif; other site 349102012044 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349102012045 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 349102012046 active site 349102012047 phosphorylation site [posttranslational modification] 349102012048 intermolecular recognition site; other site 349102012049 dimerization interface [polypeptide binding]; other site 349102012050 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 349102012051 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 349102012052 DXD motif; other site 349102012053 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 349102012054 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 349102012055 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349102012056 GAF domain; Region: GAF; pfam01590 349102012057 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102012058 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102012059 metal binding site [ion binding]; metal-binding site 349102012060 active site 349102012061 I-site; other site 349102012062 PAS fold; Region: PAS; pfam00989 349102012063 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102012064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102012065 metal binding site [ion binding]; metal-binding site 349102012066 active site 349102012067 I-site; other site 349102012068 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349102012069 GAF domain; Region: GAF; pfam01590 349102012070 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 349102012071 PAS domain; Region: PAS_9; pfam13426 349102012072 putative active site [active] 349102012073 heme pocket [chemical binding]; other site 349102012074 PAS domain; Region: PAS_9; pfam13426 349102012075 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349102012076 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102012077 metal binding site [ion binding]; metal-binding site 349102012078 active site 349102012079 I-site; other site 349102012080 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 349102012081 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102012082 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 349102012083 active site 349102012084 phosphorylation site [posttranslational modification] 349102012085 intermolecular recognition site; other site 349102012086 dimerization interface [polypeptide binding]; other site 349102012087 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 349102012088 DNA binding residues [nucleotide binding] 349102012089 dimerization interface [polypeptide binding]; other site 349102012090 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 349102012091 HicB family; Region: HicB; pfam05534 349102012092 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102012093 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 349102012094 active site 349102012095 phosphorylation site [posttranslational modification] 349102012096 intermolecular recognition site; other site 349102012097 dimerization interface [polypeptide binding]; other site 349102012098 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 349102012099 DNA binding residues [nucleotide binding] 349102012100 dimerization interface [polypeptide binding]; other site 349102012101 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349102012102 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349102012103 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 349102012104 DNA binding residues [nucleotide binding] 349102012105 dimerization interface [polypeptide binding]; other site 349102012106 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 349102012107 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 349102012108 oligomeric interface; other site 349102012109 putative active site [active] 349102012110 homodimer interface [polypeptide binding]; other site 349102012111 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 349102012112 HipA-like C-terminal domain; Region: HipA_C; pfam07804 349102012113 Integrase core domain; Region: rve; pfam00665 349102012114 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 349102012115 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 349102012116 Walker A motif; other site 349102012117 ATP binding site [chemical binding]; other site 349102012118 HipA N-terminal domain; Region: Couple_hipA; cl11853 349102012119 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 349102012120 salt bridge; other site 349102012121 non-specific DNA binding site [nucleotide binding]; other site 349102012122 sequence-specific DNA binding site [nucleotide binding]; other site 349102012123 PIN domain; Region: PIN_3; pfam13470 349102012124 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349102012125 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 349102012126 non-specific DNA binding site [nucleotide binding]; other site 349102012127 salt bridge; other site 349102012128 sequence-specific DNA binding site [nucleotide binding]; other site 349102012129 HipA N-terminal domain; Region: Couple_hipA; cl11853 349102012130 HipA-like N-terminal domain; Region: HipA_N; pfam07805 349102012131 HipA-like C-terminal domain; Region: HipA_C; pfam07804 349102012132 excinuclease ABC subunit C; Reviewed; Region: uvrC; PRK12306 349102012133 YadA-like C-terminal region; Region: YadA; pfam03895 349102012134 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 349102012135 TspO/MBR family; Region: TspO_MBR; pfam03073 349102012136 hypothetical protein; Validated; Region: PRK07078 349102012137 Domain of unknown function (DUF927); Region: DUF927; pfam06048 349102012138 Fic family protein [Function unknown]; Region: COG3177 349102012139 Fic/DOC family; Region: Fic; pfam02661 349102012140 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 349102012141 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 349102012142 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 349102012143 Fic family protein [Function unknown]; Region: COG3177 349102012144 HipA N-terminal domain; Region: Couple_hipA; pfam13657 349102012145 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 349102012146 HipA-like N-terminal domain; Region: HipA_N; pfam07805 349102012147 HipA-like C-terminal domain; Region: HipA_C; pfam07804 349102012148 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 349102012149 AzlC protein; Region: AzlC; pfam03591 349102012150 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349102012151 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 349102012152 sequence-specific DNA binding site [nucleotide binding]; other site 349102012153 salt bridge; other site 349102012154 Cupin domain; Region: Cupin_2; cl17218 349102012155 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349102012156 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 349102012157 S-adenosylmethionine binding site [chemical binding]; other site 349102012158 CcdB protein; Region: CcdB; pfam01845 349102012159 Fic family protein [Function unknown]; Region: COG3177 349102012160 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 349102012161 Fic/DOC family; Region: Fic; pfam02661 349102012162 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 349102012163 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 349102012164 TniQ; Region: TniQ; pfam06527 349102012165 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 349102012166 AAA domain; Region: AAA_22; pfam13401 349102012167 Walker A motif; other site 349102012168 ATP binding site [chemical binding]; other site 349102012169 Walker B motif; other site 349102012170 arginine finger; other site 349102012171 Winged helix-turn helix; Region: HTH_29; pfam13551 349102012172 Integrase core domain; Region: rve; pfam00665 349102012173 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 349102012174 CcdB protein; Region: CcdB; cl03380 349102012175 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 349102012176 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 349102012177 active site 349102012178 Int/Topo IB signature motif; other site 349102012179 DNA binding site [nucleotide binding] 349102012180 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 349102012181 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 349102012182 Replication initiator protein A; Region: RPA; pfam10134 349102012183 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 349102012184 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 349102012185 P-loop; other site 349102012186 Magnesium ion binding site [ion binding]; other site 349102012187 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 349102012188 Magnesium ion binding site [ion binding]; other site 349102012189 ParB-like nuclease domain; Region: ParBc; pfam02195 349102012190 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 349102012191 HAMP domain; Region: HAMP; pfam00672 349102012192 dimerization interface [polypeptide binding]; other site 349102012193 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102012194 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102012195 dimer interface [polypeptide binding]; other site 349102012196 putative CheW interface [polypeptide binding]; other site 349102012197 LysE type translocator; Region: LysE; cl00565 349102012198 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 349102012199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102012200 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 349102012201 dimerization interface [polypeptide binding]; other site 349102012202 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 349102012203 nucleotide binding site [chemical binding]; other site 349102012204 putative NEF/HSP70 interaction site [polypeptide binding]; other site 349102012205 SBD interface [polypeptide binding]; other site 349102012206 Bacterial SH3 domain; Region: SH3_3; pfam08239 349102012207 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 349102012208 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 349102012209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102012210 NAD(P) binding site [chemical binding]; other site 349102012211 active site 349102012212 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 349102012213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349102012214 NAD(P) binding site [chemical binding]; other site 349102012215 active site 349102012216 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 349102012217 DNA-binding site [nucleotide binding]; DNA binding site 349102012218 RNA-binding motif; other site 349102012219 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 349102012220 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 349102012221 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349102012222 putative ligand binding residues [chemical binding]; other site 349102012223 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349102012224 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349102012225 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 349102012226 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349102012227 Walker A/P-loop; other site 349102012228 ATP binding site [chemical binding]; other site 349102012229 Q-loop/lid; other site 349102012230 ABC transporter signature motif; other site 349102012231 Walker B; other site 349102012232 D-loop; other site 349102012233 H-loop/switch region; other site 349102012234 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 349102012235 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 349102012236 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 349102012237 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349102012238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349102012239 DNA-binding site [nucleotide binding]; DNA binding site 349102012240 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 349102012241 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349102012242 Cytochrome c; Region: Cytochrom_C; cl11414 349102012243 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349102012244 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 349102012245 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 349102012246 molybdopterin cofactor binding site [chemical binding]; other site 349102012247 substrate binding site [chemical binding]; other site 349102012248 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 349102012249 molybdopterin cofactor binding site; other site 349102012250 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349102012251 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349102012252 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 349102012253 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349102012254 HAMP domain; Region: HAMP; pfam00672 349102012255 dimerization interface [polypeptide binding]; other site 349102012256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349102012257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102012258 dimer interface [polypeptide binding]; other site 349102012259 putative CheW interface [polypeptide binding]; other site 349102012260 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 349102012261 heme binding pocket [chemical binding]; other site 349102012262 heme ligand [chemical binding]; other site 349102012263 PAS fold; Region: PAS_2; pfam08446 349102012264 GAF domain; Region: GAF; pfam01590 349102012265 Phytochrome region; Region: PHY; pfam00360 349102012266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349102012267 metal binding site [ion binding]; metal-binding site 349102012268 active site 349102012269 I-site; other site 349102012270 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 349102012271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349102012272 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349102012273 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349102012274 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 349102012275 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 349102012276 N-terminal plug; other site 349102012277 ligand-binding site [chemical binding]; other site 349102012278 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349102012279 Domain of unknown function DUF21; Region: DUF21; pfam01595 349102012280 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 349102012281 Transporter associated domain; Region: CorC_HlyC; smart01091 349102012282 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 349102012283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349102012284 dimer interface [polypeptide binding]; other site 349102012285 putative CheW interface [polypeptide binding]; other site 349102012286 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102012287 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102012288 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102012289 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 349102012290 DNA-binding site [nucleotide binding]; DNA binding site 349102012291 RNA-binding motif; other site 349102012292 Protein of unknown function (DUF982); Region: DUF982; pfam06169 349102012293 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 349102012294 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102012295 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102012296 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102012297 putative addiction module antidote; Region: doc_partner; TIGR02609 349102012298 Fic/DOC family; Region: Fic; cl00960 349102012299 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349102012300 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 349102012301 catalytic residues [active] 349102012302 catalytic nucleophile [active] 349102012303 Recombinase; Region: Recombinase; pfam07508 349102012304 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349102012305 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349102012306 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349102012307 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102012308 Transposase; Region: HTH_Tnp_1; pfam01527 349102012309 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102012310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102012311 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102012312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102012313 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102012314 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102012315 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102012316 Resolvase, N terminal domain; Region: Resolvase; smart00857 349102012317 catalytic nucleophile [active] 349102012318 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 349102012319 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102012320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102012321 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102012322 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102012323 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102012324 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102012325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102012326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102012327 Transposase; Region: HTH_Tnp_1; pfam01527 349102012328 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 349102012329 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 349102012330 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 349102012331 molybdenum-pterin binding domain; Region: Mop; TIGR00638 349102012332 molybdenum-pterin binding domain; Region: Mop; TIGR00638 349102012333 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349102012334 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 349102012335 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349102012336 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 349102012337 dimer interface [polypeptide binding]; other site 349102012338 conserved gate region; other site 349102012339 putative PBP binding loops; other site 349102012340 ABC-ATPase subunit interface; other site 349102012341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349102012342 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 349102012343 Walker A/P-loop; other site 349102012344 ATP binding site [chemical binding]; other site 349102012345 Q-loop/lid; other site 349102012346 ABC transporter signature motif; other site 349102012347 Walker B; other site 349102012348 D-loop; other site 349102012349 H-loop/switch region; other site 349102012350 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349102012351 molybdenum transport protein ModD; Provisional; Region: PRK06096 349102012352 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 349102012353 dimerization interface [polypeptide binding]; other site 349102012354 active site 349102012355 Divergent AAA domain; Region: AAA_4; pfam04326 349102012356 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 349102012357 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 349102012358 Integrase core domain; Region: rve; pfam00665 349102012359 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349102012360 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 349102012361 catalytic residues [active] 349102012362 catalytic nucleophile [active] 349102012363 Presynaptic Site I dimer interface [polypeptide binding]; other site 349102012364 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 349102012365 Synaptic Flat tetramer interface [polypeptide binding]; other site 349102012366 Synaptic Site I dimer interface [polypeptide binding]; other site 349102012367 DNA binding site [nucleotide binding] 349102012368 ParB-like nuclease domain; Region: ParBc; pfam02195 349102012369 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 349102012370 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 349102012371 P-loop; other site 349102012372 Magnesium ion binding site [ion binding]; other site 349102012373 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 349102012374 Magnesium ion binding site [ion binding]; other site 349102012375 DnaA N-terminal domain; Region: DnaA_N; pfam11638 349102012376 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 349102012377 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 349102012378 active site 349102012379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349102012380 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 349102012381 ATP binding site [chemical binding]; other site 349102012382 Mg2+ binding site [ion binding]; other site 349102012383 G-X-G motif; other site 349102012384 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349102012385 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 349102012386 active site 349102012387 phosphorylation site [posttranslational modification] 349102012388 intermolecular recognition site; other site 349102012389 dimerization interface [polypeptide binding]; other site 349102012390 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 349102012391 DNA binding site [nucleotide binding] 349102012392 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 349102012393 DNA-binding site [nucleotide binding]; DNA binding site 349102012394 RNA-binding motif; other site 349102012395 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 349102012396 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 349102012397 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349102012398 catalytic residue [active] 349102012399 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 349102012400 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 349102012401 Walker A/P-loop; other site 349102012402 ATP binding site [chemical binding]; other site 349102012403 Q-loop/lid; other site 349102012404 ABC transporter signature motif; other site 349102012405 Walker B; other site 349102012406 D-loop; other site 349102012407 H-loop/switch region; other site 349102012408 NIL domain; Region: NIL; pfam09383 349102012409 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 349102012410 dimer interface [polypeptide binding]; other site 349102012411 conserved gate region; other site 349102012412 ABC-ATPase subunit interface; other site 349102012413 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349102012414 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349102012415 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 349102012416 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349102012417 conserved cys residue [active] 349102012418 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 349102012419 Ligand Binding Site [chemical binding]; other site 349102012420 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 349102012421 Ligand Binding Site [chemical binding]; other site 349102012422 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 349102012423 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 349102012424 TrkA-N domain; Region: TrkA_N; pfam02254 349102012425 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349102012426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 349102012427 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349102012428 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 349102012429 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 349102012430 trimer interface [polypeptide binding]; other site 349102012431 active site 349102012432 substrate binding site [chemical binding]; other site 349102012433 CoA binding site [chemical binding]; other site 349102012434 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 349102012435 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 349102012436 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 349102012437 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 349102012438 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 349102012439 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 349102012440 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 349102012441 Uncharacterized protein family (UPF0254); Region: UPF0254; cl01641 349102012442 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 349102012443 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 349102012444 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 349102012445 Phage protein D [General function prediction only]; Region: COG3500 349102012446 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 349102012447 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 349102012448 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 349102012449 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 349102012450 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 349102012451 phage tail protein domain; Region: tail_TIGR02242 349102012452 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 349102012453 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349102012454 Walker A motif; other site 349102012455 ATP binding site [chemical binding]; other site 349102012456 Walker B motif; other site 349102012457 arginine finger; other site 349102012458 HicB family; Region: HicB; pfam05534 349102012459 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 349102012460 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 349102012461 Methyltransferase domain; Region: Methyltransf_26; pfam13659 349102012462 TIR domain; Region: TIR_2; pfam13676 349102012463 SIR2-like domain; Region: SIR2_2; pfam13289 349102012464 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 349102012465 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 349102012466 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 349102012467 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 349102012468 Walker A motif; other site 349102012469 ATP binding site [chemical binding]; other site 349102012470 Walker B motif; other site 349102012471 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 349102012472 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 349102012473 Walker A motif; other site 349102012474 hexamer interface [polypeptide binding]; other site 349102012475 ATP binding site [chemical binding]; other site 349102012476 Walker B motif; other site 349102012477 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 349102012478 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 349102012479 VirB7 interaction site; other site 349102012480 VirB8 protein; Region: VirB8; pfam04335 349102012481 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 349102012482 Type IV secretion system proteins; Region: T4SS; pfam07996 349102012483 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 349102012484 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 349102012485 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 349102012486 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 349102012487 TrbC/VIRB2 family; Region: TrbC; pfam04956 349102012488 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 349102012489 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349102012490 catalytic residue [active] 349102012491 Replication protein C N-terminal domain; Region: RP-C; pfam03428 349102012492 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 349102012493 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349102012494 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 349102012495 catalytic residues [active] 349102012496 catalytic nucleophile [active] 349102012497 Presynaptic Site I dimer interface [polypeptide binding]; other site 349102012498 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 349102012499 Synaptic Flat tetramer interface [polypeptide binding]; other site 349102012500 Synaptic Site I dimer interface [polypeptide binding]; other site 349102012501 DNA binding site [nucleotide binding] 349102012502 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 349102012503 DNA-binding interface [nucleotide binding]; DNA binding site 349102012504 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 349102012505 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 349102012506 S-adenosylmethionine binding site [chemical binding]; other site 349102012507 H-NS histone family; Region: Histone_HNS; pfam00816 349102012508 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 349102012509 Domain of unknown function (DUF932); Region: DUF932; pfam06067 349102012510 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 349102012511 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 349102012512 Magnesium ion binding site [ion binding]; other site 349102012513 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 349102012514 ParB-like nuclease domain; Region: ParB; smart00470 349102012515 KorB domain; Region: KorB; pfam08535 349102012516 DNA protecting protein DprA; Region: dprA; TIGR00732 349102012517 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 349102012518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102012519 Transposase; Region: HTH_Tnp_1; cl17663 349102012520 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 349102012521 HTH-like domain; Region: HTH_21; pfam13276 349102012522 Integrase core domain; Region: rve; pfam00665 349102012523 Integrase core domain; Region: rve_3; pfam13683 349102012524 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349102012525 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 349102012526 catalytic residues [active] 349102012527 Recombinase; Region: Recombinase; pfam07508 349102012528 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 349102012529 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349102012530 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102012531 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349102012532 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349102012533 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349102012534 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349102012535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349102012536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349102012537 Transposase; Region: HTH_Tnp_1; pfam01527 349102012538 Replication initiator protein A; Region: RPA; pfam10134 349102012539 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349102012540 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 349102012541 P-loop; other site 349102012542 Magnesium ion binding site [ion binding]; other site