-- dump date 20120504_143143 -- class Genbank::misc_feature -- table misc_feature_note -- id note 243164000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 243164000002 hypothetical protein; Validated; Region: PRK06672 243164000003 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 243164000004 Walker A motif; other site 243164000005 ATP binding site [chemical binding]; other site 243164000006 Walker B motif; other site 243164000007 arginine finger; other site 243164000008 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 243164000009 DnaA box-binding interface [nucleotide binding]; other site 243164000010 GTPase CgtA; Reviewed; Region: obgE; PRK12297 243164000011 GTP1/OBG; Region: GTP1_OBG; pfam01018 243164000012 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 243164000013 G1 box; other site 243164000014 GTP/Mg2+ binding site [chemical binding]; other site 243164000015 Switch I region; other site 243164000016 G2 box; other site 243164000017 G3 box; other site 243164000018 Switch II region; other site 243164000019 G4 box; other site 243164000020 G5 box; other site 243164000021 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 243164000022 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 243164000023 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 243164000024 active site 243164000025 (T/H)XGH motif; other site 243164000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 243164000027 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 243164000028 ATP binding site [chemical binding]; other site 243164000029 Mg2+ binding site [ion binding]; other site 243164000030 G-X-G motif; other site 243164000031 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 243164000032 anchoring element; other site 243164000033 dimer interface [polypeptide binding]; other site 243164000034 ATP binding site [chemical binding]; other site 243164000035 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 243164000036 active site 243164000037 putative metal-binding site [ion binding]; other site 243164000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 243164000039 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 243164000040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243164000041 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 243164000042 synthetase active site [active] 243164000043 NTP binding site [chemical binding]; other site 243164000044 metal binding site [ion binding]; metal-binding site 243164000045 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 243164000046 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 243164000047 histidyl-tRNA synthetase; Region: hisS; TIGR00442 243164000048 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 243164000049 dimer interface [polypeptide binding]; other site 243164000050 motif 1; other site 243164000051 active site 243164000052 motif 2; other site 243164000053 motif 3; other site 243164000054 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 243164000055 anticodon binding site; other site 243164000056 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 243164000057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000058 NAD(P) binding pocket [chemical binding]; other site 243164000059 Domain of unknown function (DUF205); Region: DUF205; cl00410 243164000060 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 243164000061 homodimer interface [polypeptide binding]; other site 243164000062 substrate-cofactor binding pocket; other site 243164000063 Aminotransferase class IV; Region: Aminotran_4; pfam01063 243164000064 catalytic residue [active] 243164000065 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 243164000066 active site 243164000067 DNA polymerase IV; Validated; Region: PRK02406 243164000068 DNA binding site [nucleotide binding] 243164000069 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 243164000070 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 243164000071 active site 243164000072 dimer interface [polypeptide binding]; other site 243164000073 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 243164000074 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 243164000075 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 243164000076 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 243164000077 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243164000078 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 243164000079 putative active site [active] 243164000080 dimerization interface [polypeptide binding]; other site 243164000081 putative tRNAtyr binding site [nucleotide binding]; other site 243164000082 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 243164000083 metal binding site 2 [ion binding]; metal-binding site 243164000084 putative DNA binding helix; other site 243164000085 metal binding site 1 [ion binding]; metal-binding site 243164000086 dimer interface [polypeptide binding]; other site 243164000087 structural Zn2+ binding site [ion binding]; other site 243164000088 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 243164000089 Competence protein; Region: Competence; cl00471 243164000090 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164000091 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 243164000092 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 243164000093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000094 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243164000095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000096 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 243164000097 Ligand Binding Site [chemical binding]; other site 243164000098 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 243164000099 Cation transport protein; Region: TrkH; cl10514 243164000100 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 243164000101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000102 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243164000103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000104 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243164000105 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 243164000106 Cation efflux family; Region: Cation_efflux; cl00316 243164000107 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 243164000108 Phosphate transporter family; Region: PHO4; cl00396 243164000109 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 243164000110 catalytic site [active] 243164000111 G-X2-G-X-G-K; other site 243164000112 Domain of unknown function (DUF370); Region: DUF370; cl00898 243164000113 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 243164000114 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 243164000115 FAD binding pocket [chemical binding]; other site 243164000116 FAD binding motif [chemical binding]; other site 243164000117 phosphate binding motif [ion binding]; other site 243164000118 beta-alpha-beta structure motif; other site 243164000119 NAD binding pocket [chemical binding]; other site 243164000120 Iron coordination center [ion binding]; other site 243164000121 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 243164000122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000123 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 243164000124 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 243164000125 S-adenosylmethionine binding site [chemical binding]; other site 243164000126 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 243164000127 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 243164000128 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 243164000129 GTP-binding protein YchF; Reviewed; Region: PRK09601 243164000130 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 243164000131 G1 box; other site 243164000132 GTP/Mg2+ binding site [chemical binding]; other site 243164000133 Switch I region; other site 243164000134 G2 box; other site 243164000135 Switch II region; other site 243164000136 G3 box; other site 243164000137 G4 box; other site 243164000138 G5 box; other site 243164000139 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 243164000140 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 243164000141 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 243164000142 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 243164000143 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 243164000144 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243164000145 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 243164000146 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 243164000147 motif 1; other site 243164000148 active site 243164000149 motif 2; other site 243164000150 motif 3; other site 243164000151 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 243164000152 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 243164000153 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 243164000154 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 243164000155 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 243164000156 active site 243164000157 NAD binding site [chemical binding]; other site 243164000158 metal binding site [ion binding]; metal-binding site 243164000159 Clp protease ATP binding subunit; Region: clpC; CHL00095 243164000160 Clp amino terminal domain; Region: Clp_N; pfam02861 243164000161 Clp amino terminal domain; Region: Clp_N; pfam02861 243164000162 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 243164000163 Walker A motif; other site 243164000164 ATP binding site [chemical binding]; other site 243164000165 Walker B motif; other site 243164000166 arginine finger; other site 243164000167 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 243164000168 Walker A motif; other site 243164000169 ATP binding site [chemical binding]; other site 243164000170 Walker B motif; other site 243164000171 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243164000172 DNA repair protein RadA; Provisional; Region: PRK11823 243164000173 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 243164000174 Walker A motif/ATP binding site; other site 243164000175 ATP binding site [chemical binding]; other site 243164000176 Walker B motif; other site 243164000177 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 243164000178 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 243164000179 substrate binding site; other site 243164000180 dimer interface; other site 243164000181 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 243164000182 homotrimer interaction site [polypeptide binding]; other site 243164000183 zinc binding site [ion binding]; other site 243164000184 CDP-binding sites; other site 243164000185 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 243164000186 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 243164000187 active site 243164000188 HIGH motif; other site 243164000189 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 243164000190 KMSKS motif; other site 243164000191 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243164000192 tRNA binding surface [nucleotide binding]; other site 243164000193 anticodon binding site; other site 243164000194 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 243164000195 catalytic residues [active] 243164000196 catalytic nucleophile [active] 243164000197 Recombinase; Region: Recombinase; pfam07508 243164000198 Autophagy protein Apg6; Region: APG6; pfam04111 243164000199 ParB-like nuclease domain; Region: ParBc; cl02129 243164000200 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; cl12011 243164000201 S-adenosylmethionine synthetase; Provisional; Region: PRK12459 243164000202 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 243164000203 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 243164000204 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 243164000205 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 243164000206 active site 243164000207 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 243164000208 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 243164000209 ATP binding site [chemical binding]; other site 243164000210 putative Mg++ binding site [ion binding]; other site 243164000211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164000212 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 243164000213 hypothetical protein; Provisional; Region: PRK14709 243164000214 D5 N terminal like; Region: D5_N; cl07360 243164000215 Poxvirus D5 protein-like; Region: Pox_D5; cl15708 243164000216 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 243164000217 DNA binding site [nucleotide binding] 243164000218 active site 243164000219 catalytic site [active] 243164000220 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 243164000221 Domain of unknown function (DUF927); Region: DUF927; cl12098 243164000222 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243164000223 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 243164000224 catalytic residues [active] 243164000225 catalytic nucleophile [active] 243164000226 Presynaptic Site I dimer interface [polypeptide binding]; other site 243164000227 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 243164000228 Synaptic Flat tetramer interface [polypeptide binding]; other site 243164000229 Synaptic Site I dimer interface [polypeptide binding]; other site 243164000230 DNA binding site [nucleotide binding] 243164000231 reductive dehalogenase; Region: RDH; TIGR02486 243164000232 Helix-turn-helix domains; Region: HTH; cl00088 243164000233 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cd00397 243164000234 DNA binding site [nucleotide binding] 243164000235 active site 243164000236 Int/Topo IB signature motif; other site 243164000237 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 243164000238 non-specific DNA binding site [nucleotide binding]; other site 243164000239 salt bridge; other site 243164000240 sequence-specific DNA binding site [nucleotide binding]; other site 243164000241 reductive dehalogenase; Region: RDH; TIGR02486 243164000242 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 243164000243 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; cl15367 243164000244 Radical SAM superfamily; Region: Radical_SAM; pfam04055 243164000245 FeS/SAM binding site; other site 243164000246 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 243164000247 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164000248 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 243164000249 active site 243164000250 phosphorylation site [posttranslational modification] 243164000251 intermolecular recognition site; other site 243164000252 dimerization interface [polypeptide binding]; other site 243164000253 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 243164000254 DNA binding residues [nucleotide binding] 243164000255 dimerization interface [polypeptide binding]; other site 243164000256 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 243164000257 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 243164000258 G1 box; other site 243164000259 GTP/Mg2+ binding site [chemical binding]; other site 243164000260 Switch I region; other site 243164000261 G2 box; other site 243164000262 G3 box; other site 243164000263 Switch II region; other site 243164000264 G4 box; other site 243164000265 G5 box; other site 243164000266 Nucleoside recognition; Region: Gate; cl00486 243164000267 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 243164000268 Nucleoside recognition; Region: Gate; cl00486 243164000269 FeoA domain; Region: FeoA; cl00838 243164000270 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 243164000271 Helix-turn-helix domains; Region: HTH; cl00088 243164000272 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 243164000273 FeoA domain; Region: FeoA; cl00838 243164000274 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 243164000275 dinuclear metal binding motif [ion binding]; other site 243164000276 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164000277 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 243164000278 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 243164000279 GTP binding site; other site 243164000280 tetrathionate reductase subunit A; Provisional; Region: PRK14991 243164000281 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 243164000282 molybdopterin cofactor binding site; other site 243164000283 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 243164000284 putative molybdopterin cofactor binding site [chemical binding]; other site 243164000285 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 243164000286 putative molybdopterin cofactor binding site; other site 243164000287 Polysulphide reductase, NrfD; Region: NrfD; cl01295 243164000288 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 243164000289 4Fe-4S binding domain; Region: Fer4; cl02805 243164000290 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 243164000291 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 243164000292 Walker A motif; other site 243164000293 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164000294 E3 Ubiquitin ligase; Region: GIDE; pfam12483 243164000295 LemA family; Region: LemA; cl00742 243164000296 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 243164000297 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 243164000298 putative catalytic site [active] 243164000299 putative metal binding site [ion binding]; other site 243164000300 putative phosphate binding site [ion binding]; other site 243164000301 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 243164000302 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 243164000303 putative substrate-binding site; other site 243164000304 nickel binding site [ion binding]; other site 243164000305 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 243164000306 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 243164000307 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 243164000308 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 243164000309 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 243164000310 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 243164000311 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164000312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243164000313 Helix-turn-helix domains; Region: HTH; cl00088 243164000314 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 243164000315 conserved cys residue [active] 243164000316 pyruvate carboxylase subunit B; Validated; Region: PRK09282 243164000317 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 243164000318 active site 243164000319 catalytic residues [active] 243164000320 metal binding site [ion binding]; metal-binding site 243164000321 homodimer binding site [polypeptide binding]; other site 243164000322 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 243164000323 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 243164000324 carboxyltransferase (CT) interaction site; other site 243164000325 biotinylation site [posttranslational modification]; other site 243164000326 pyruvate carboxylase subunit A; Validated; Region: PRK08654 243164000327 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 243164000328 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243164000329 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 243164000330 2TM domain; Region: 2TM; pfam13239 243164000331 4Fe-4S binding domain; Region: Fer4; cl02805 243164000332 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243164000333 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 243164000334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000335 CutC family; Region: CutC; cl01218 243164000336 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 243164000337 4Fe-4S binding domain; Region: Fer4; cl02805 243164000338 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 243164000339 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 243164000340 putative NAD(P) binding site [chemical binding]; other site 243164000341 catalytic Zn binding site [ion binding]; other site 243164000342 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 243164000343 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 243164000344 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 243164000345 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 243164000346 GAF domain; Region: GAF; cl00853 243164000347 PAS domain S-box; Region: sensory_box; TIGR00229 243164000348 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 243164000349 putative active site [active] 243164000350 heme pocket [chemical binding]; other site 243164000351 PAS domain S-box; Region: sensory_box; TIGR00229 243164000352 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 243164000353 PAS domain S-box; Region: sensory_box; TIGR00229 243164000354 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 243164000355 putative active site [active] 243164000356 heme pocket [chemical binding]; other site 243164000357 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 243164000358 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 243164000359 putative active site [active] 243164000360 heme pocket [chemical binding]; other site 243164000361 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 243164000362 dimer interface [polypeptide binding]; other site 243164000363 phosphorylation site [posttranslational modification] 243164000364 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 243164000365 ATP binding site [chemical binding]; other site 243164000366 G-X-G motif; other site 243164000367 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 243164000368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164000369 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 243164000370 catalytic triad [active] 243164000371 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 243164000372 Response regulator receiver domain; Region: Response_reg; pfam00072 243164000373 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 243164000374 active site 243164000375 phosphorylation site [posttranslational modification] 243164000376 intermolecular recognition site; other site 243164000377 dimerization interface [polypeptide binding]; other site 243164000378 Response regulator receiver domain; Region: Response_reg; pfam00072 243164000379 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 243164000380 active site 243164000381 phosphorylation site [posttranslational modification] 243164000382 intermolecular recognition site; other site 243164000383 dimerization interface [polypeptide binding]; other site 243164000384 Rhomboid family; Region: Rhomboid; cl11446 243164000385 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164000386 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 243164000387 active site 243164000388 phosphorylation site [posttranslational modification] 243164000389 intermolecular recognition site; other site 243164000390 dimerization interface [polypeptide binding]; other site 243164000391 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 243164000392 DNA binding site [nucleotide binding] 243164000393 sensory histidine kinase CreC; Provisional; Region: PRK11100 243164000394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 243164000395 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 243164000396 dimerization interface [polypeptide binding]; other site 243164000397 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 243164000398 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 243164000399 dimer interface [polypeptide binding]; other site 243164000400 phosphorylation site [posttranslational modification] 243164000401 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 243164000402 ATP binding site [chemical binding]; other site 243164000403 Mg2+ binding site [ion binding]; other site 243164000404 G-X-G motif; other site 243164000405 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 243164000406 active site 243164000407 dimer interfaces [polypeptide binding]; other site 243164000408 catalytic residues [active] 243164000409 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 243164000410 dimerization interface [polypeptide binding]; other site 243164000411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 243164000412 dimer interface [polypeptide binding]; other site 243164000413 conserved gate region; other site 243164000414 putative PBP binding loops; other site 243164000415 ABC-ATPase subunit interface; other site 243164000416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 243164000417 dimer interface [polypeptide binding]; other site 243164000418 conserved gate region; other site 243164000419 putative PBP binding loops; other site 243164000420 ABC-ATPase subunit interface; other site 243164000421 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14249 243164000422 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 243164000423 Walker A/P-loop; other site 243164000424 ATP binding site [chemical binding]; other site 243164000425 Q-loop/lid; other site 243164000426 ABC transporter signature motif; other site 243164000427 Walker B; other site 243164000428 D-loop; other site 243164000429 H-loop/switch region; other site 243164000430 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 243164000431 PhoU domain; Region: PhoU; pfam01895 243164000432 PhoU domain; Region: PhoU; pfam01895 243164000433 Low molecular weight phosphatase family; Region: LMWPc; cd00115 243164000434 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 243164000435 active site 243164000436 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243164000437 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164000438 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 243164000439 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 243164000440 putative dimer interface [polypeptide binding]; other site 243164000441 [2Fe-2S] cluster binding site [ion binding]; other site 243164000442 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 243164000443 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 243164000444 SLBB domain; Region: SLBB; pfam10531 243164000445 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 243164000446 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 243164000447 catalytic loop [active] 243164000448 iron binding site [ion binding]; other site 243164000449 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 243164000450 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 243164000451 4Fe-4S binding domain; Region: Fer4; cl02805 243164000452 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 243164000453 4Fe-4S binding domain; Region: Fer4; cl02805 243164000454 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 243164000455 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 243164000456 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 243164000457 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243164000458 Protein of unknown function DUF45; Region: DUF45; cl00636 243164000459 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 243164000460 EamA-like transporter family; Region: EamA; cl01037 243164000461 EamA-like transporter family; Region: EamA; cl01037 243164000462 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 243164000463 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243164000464 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 243164000465 catalytic residues [active] 243164000466 catalytic nucleophile [active] 243164000467 Recombinase; Region: Recombinase; pfam07508 243164000468 DNA replication protein DnaC; Validated; Region: PRK06835 243164000469 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 243164000470 Phage integrase family; Region: Phage_integrase; pfam00589 243164000471 DNA binding site [nucleotide binding] 243164000472 Int/Topo IB signature motif; other site 243164000473 active site 243164000474 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; cl02940 243164000475 putative DNA binding surface [nucleotide binding]; other site 243164000476 dimer interface [polypeptide binding]; other site 243164000477 beta-clamp/clamp loader binding surface; other site 243164000478 beta-clamp/translesion DNA polymerase binding surface; other site 243164000479 Helix-turn-helix domains; Region: HTH; cl00088 243164000480 Integrase core domain; Region: rve; cl01316 243164000481 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 243164000482 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 243164000483 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243164000484 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 243164000485 DNA binding residues [nucleotide binding] 243164000486 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164000487 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 243164000488 active site 243164000489 phosphorylation site [posttranslational modification] 243164000490 intermolecular recognition site; other site 243164000491 dimerization interface [polypeptide binding]; other site 243164000492 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 243164000493 DNA binding site [nucleotide binding] 243164000494 PAS domain S-box; Region: sensory_box; TIGR00229 243164000495 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 243164000496 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 243164000497 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 243164000498 dimer interface [polypeptide binding]; other site 243164000499 phosphorylation site [posttranslational modification] 243164000500 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 243164000501 ATP binding site [chemical binding]; other site 243164000502 Mg2+ binding site [ion binding]; other site 243164000503 G-X-G motif; other site 243164000504 reductive dehalogenase; Region: RDH; TIGR02486 243164000505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164000506 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 243164000507 active site 243164000508 phosphorylation site [posttranslational modification] 243164000509 intermolecular recognition site; other site 243164000510 dimerization interface [polypeptide binding]; other site 243164000511 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 243164000512 DNA binding site [nucleotide binding] 243164000513 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 243164000514 dimer interface [polypeptide binding]; other site 243164000515 phosphorylation site [posttranslational modification] 243164000516 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 243164000517 ATP binding site [chemical binding]; other site 243164000518 Mg2+ binding site [ion binding]; other site 243164000519 G-X-G motif; other site 243164000520 reductive dehalogenase; Region: RDH; TIGR02486 243164000521 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 243164000522 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 243164000523 ATP binding site [chemical binding]; other site 243164000524 Mg++ binding site [ion binding]; other site 243164000525 motif III; other site 243164000526 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 243164000527 nucleotide binding region [chemical binding]; other site 243164000528 ATP-binding site [chemical binding]; other site 243164000529 Integral membrane protein TerC family; Region: TerC; cl10468 243164000530 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 243164000531 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 243164000532 Polysulphide reductase, NrfD; Region: NrfD; cl01295 243164000533 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 243164000534 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 243164000535 molybdopterin cofactor binding site; other site 243164000536 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 243164000537 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 243164000538 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 243164000539 molybdopterin cofactor binding site; other site 243164000540 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; cl12011 243164000541 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 243164000542 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 243164000543 active site 243164000544 (T/H)XGH motif; other site 243164000545 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 243164000546 Colicin V production protein; Region: Colicin_V; cl00567 243164000547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000548 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 243164000549 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 243164000550 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 243164000551 HIGH motif; other site 243164000552 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243164000553 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243164000554 active site 243164000555 KMSKS motif; other site 243164000556 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 243164000557 tRNA binding surface [nucleotide binding]; other site 243164000558 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243164000559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000560 flavoprotein, HI0933 family; Region: TIGR00275 243164000561 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 243164000562 ArsC family; Region: ArsC; pfam03960 243164000563 catalytic residues [active] 243164000564 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 243164000565 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 243164000566 iron binding site [ion binding]; other site 243164000567 Protein of unknown function (DUF1616); Region: DUF1616; cl01959 243164000568 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 243164000569 hypothetical protein; Validated; Region: PRK06769 243164000570 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 243164000571 active site 243164000572 motif I; other site 243164000573 motif II; other site 243164000574 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 243164000575 Ligand binding site; other site 243164000576 Putative Catalytic site; other site 243164000577 DXD motif; other site 243164000578 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 243164000579 active site 243164000580 UDP-glucose 4 epimerase, subgroup 2, extended (e) SDRs; Region: UDP_G4E_2_SDR_e; cd05234 243164000581 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 243164000582 NAD binding site [chemical binding]; other site 243164000583 homodimer interface [polypeptide binding]; other site 243164000584 active site 243164000585 putative substrate binding site [chemical binding]; other site 243164000586 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 243164000587 Substrate binding site; other site 243164000588 Mg++ binding site; other site 243164000589 metal-binding site 243164000590 Mg++ binding site; other site 243164000591 metal-binding site 243164000592 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 243164000593 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 243164000594 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 243164000595 dimer interface [polypeptide binding]; other site 243164000596 active site 243164000597 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 243164000598 active site 243164000599 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 243164000600 active site 243164000601 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 243164000602 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 243164000603 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 243164000604 S-adenosylmethionine binding site [chemical binding]; other site 243164000605 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 243164000606 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 243164000607 4Fe-4S binding domain; Region: Fer4; cl02805 243164000608 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 243164000609 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 243164000610 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 243164000611 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 243164000612 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 243164000613 active site 243164000614 catalytic tetrad [active] 243164000615 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; cl15358 243164000616 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 243164000617 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 243164000618 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 243164000619 FeS/SAM binding site; other site 243164000620 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 243164000621 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 243164000622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164000623 Coenzyme A binding pocket [chemical binding]; other site 243164000624 serpin-like protein; Provisional; Region: PHA02660 243164000625 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 243164000626 reactive center loop; other site 243164000627 Haemolysin-III related; Region: HlyIII; cl03831 243164000628 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 243164000629 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243164000630 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164000631 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243164000632 ABC transporter; Region: ABC_tran_2; pfam12848 243164000633 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243164000634 peptide chain release factor 2; Validated; Region: prfB; PRK00578 243164000635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164000636 flavoprotein, HI0933 family; Region: TIGR00275 243164000637 Double zinc ribbon; Region: DZR; pfam12773 243164000638 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 243164000639 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 243164000640 TM2 domain; Region: TM2; cl00984 243164000641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164000642 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 243164000643 active site 243164000644 phosphorylation site [posttranslational modification] 243164000645 intermolecular recognition site; other site 243164000646 dimerization interface [polypeptide binding]; other site 243164000647 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 243164000648 DNA binding site [nucleotide binding] 243164000649 sensory histidine kinase AtoS; Provisional; Region: PRK11360 243164000650 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 243164000651 dimer interface [polypeptide binding]; other site 243164000652 phosphorylation site [posttranslational modification] 243164000653 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 243164000654 ATP binding site [chemical binding]; other site 243164000655 Mg2+ binding site [ion binding]; other site 243164000656 G-X-G motif; other site 243164000657 reductive dehalogenase; Region: RDH; TIGR02486 243164000658 FMN-binding domain; Region: FMN_bind; cl01081 243164000659 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 243164000660 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164000661 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_IV; cd01994 243164000662 Ligand Binding Site [chemical binding]; other site 243164000663 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 243164000664 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243164000665 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 243164000666 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; cl15367 243164000667 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164000668 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 243164000669 Uncharacterised conserved protein (DUF2342); Region: DUF2342; cl02183 243164000670 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 243164000671 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 243164000672 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 243164000673 active site 243164000674 dimer interface [polypeptide binding]; other site 243164000675 effector binding site; other site 243164000676 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 243164000677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164000678 Walker A motif; other site 243164000679 ATP binding site [chemical binding]; other site 243164000680 Walker B motif; other site 243164000681 CobD/Cbib protein; Region: CobD_Cbib; cl00561 243164000682 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 243164000683 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 243164000684 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243164000685 catalytic residue [active] 243164000686 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164000687 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 243164000688 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 243164000689 cobalamin binding residues [chemical binding]; other site 243164000690 putative BtuC binding residues; other site 243164000691 dimer interface [polypeptide binding]; other site 243164000692 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243164000693 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 243164000694 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 243164000695 non-specific DNA binding site [nucleotide binding]; other site 243164000696 salt bridge; other site 243164000697 sequence-specific DNA binding site [nucleotide binding]; other site 243164000698 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 243164000699 Catalytic site [active] 243164000700 CHC2 zinc finger; Region: zf-CHC2; cl15369 243164000701 hypothetical protein; Validated; Region: PRK07078 243164000702 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 243164000703 active site 243164000704 metal binding site [ion binding]; metal-binding site 243164000705 interdomain interaction site; other site 243164000706 Domain of unknown function (DUF927); Region: DUF927; cl12098 243164000707 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243164000708 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 243164000709 catalytic residues [active] 243164000710 catalytic nucleophile [active] 243164000711 Presynaptic Site I dimer interface [polypeptide binding]; other site 243164000712 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 243164000713 Synaptic Flat tetramer interface [polypeptide binding]; other site 243164000714 Synaptic Site I dimer interface [polypeptide binding]; other site 243164000715 DNA binding site [nucleotide binding] 243164000716 Predicted transcriptional regulator [Transcription]; Region: COG2944 243164000717 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 243164000718 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 243164000719 active site 243164000720 metal binding site [ion binding]; metal-binding site 243164000721 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 243164000722 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 243164000723 DNA binding site [nucleotide binding] 243164000724 Int/Topo IB signature motif; other site 243164000725 active site 243164000726 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 243164000727 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 243164000728 non-specific DNA binding site [nucleotide binding]; other site 243164000729 salt bridge; other site 243164000730 sequence-specific DNA binding site [nucleotide binding]; other site 243164000731 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 243164000732 Catalytic site [active] 243164000733 CHC2 zinc finger; Region: zf-CHC2; cl15369 243164000734 hypothetical protein; Validated; Region: PRK07078 243164000735 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 243164000736 active site 243164000737 metal binding site [ion binding]; metal-binding site 243164000738 interdomain interaction site; other site 243164000739 Domain of unknown function (DUF927); Region: DUF927; cl12098 243164000740 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243164000741 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 243164000742 catalytic residues [active] 243164000743 catalytic nucleophile [active] 243164000744 Presynaptic Site I dimer interface [polypeptide binding]; other site 243164000745 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 243164000746 Synaptic Flat tetramer interface [polypeptide binding]; other site 243164000747 Synaptic Site I dimer interface [polypeptide binding]; other site 243164000748 DNA binding site [nucleotide binding] 243164000749 Predicted transcriptional regulator [Transcription]; Region: COG2944 243164000750 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 243164000751 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 243164000752 active site 243164000753 metal binding site [ion binding]; metal-binding site 243164000754 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 243164000755 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 243164000756 DNA binding site [nucleotide binding] 243164000757 Int/Topo IB signature motif; other site 243164000758 active site 243164000759 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243164000760 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 243164000761 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 243164000762 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 243164000763 ligand binding site [chemical binding]; other site 243164000764 flexible hinge region; other site 243164000765 Helix-turn-helix domains; Region: HTH; cl00088 243164000766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164000767 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 243164000768 active site 243164000769 phosphorylation site [posttranslational modification] 243164000770 intermolecular recognition site; other site 243164000771 dimerization interface [polypeptide binding]; other site 243164000772 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 243164000773 DNA binding site [nucleotide binding] 243164000774 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 243164000775 putative active site [active] 243164000776 heme pocket [chemical binding]; other site 243164000777 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 243164000778 dimer interface [polypeptide binding]; other site 243164000779 phosphorylation site [posttranslational modification] 243164000780 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 243164000781 ATP binding site [chemical binding]; other site 243164000782 Mg2+ binding site [ion binding]; other site 243164000783 G-X-G motif; other site 243164000784 reductive dehalogenase; Region: RDH; TIGR02486 243164000785 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164000786 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 243164000787 active site 243164000788 phosphorylation site [posttranslational modification] 243164000789 intermolecular recognition site; other site 243164000790 dimerization interface [polypeptide binding]; other site 243164000791 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 243164000792 DNA binding site [nucleotide binding] 243164000793 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 243164000794 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 243164000795 putative active site [active] 243164000796 heme pocket [chemical binding]; other site 243164000797 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 243164000798 dimer interface [polypeptide binding]; other site 243164000799 phosphorylation site [posttranslational modification] 243164000800 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 243164000801 ATP binding site [chemical binding]; other site 243164000802 Mg2+ binding site [ion binding]; other site 243164000803 G-X-G motif; other site 243164000804 reductive dehalogenase; Region: RDH; TIGR02486 243164000805 4Fe-4S binding domain; Region: Fer4; cl02805 243164000806 Flagellin N-methylase; Region: FliB; cl00497 243164000807 FMN-binding domain; Region: FMN_bind; cl01081 243164000808 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164000809 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164000810 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 243164000811 reductive dehalogenase; Region: RDH; TIGR02486 243164000812 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164000813 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 243164000814 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 243164000815 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 243164000816 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 243164000817 putative active site [active] 243164000818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243164000819 heme pocket [chemical binding]; other site 243164000820 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 243164000821 dimer interface [polypeptide binding]; other site 243164000822 phosphorylation site [posttranslational modification] 243164000823 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 243164000824 ATP binding site [chemical binding]; other site 243164000825 Mg2+ binding site [ion binding]; other site 243164000826 G-X-G motif; other site 243164000827 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 243164000828 active site 243164000829 phosphorylation site [posttranslational modification] 243164000830 intermolecular recognition site; other site 243164000831 dimerization interface [polypeptide binding]; other site 243164000832 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 243164000833 DNA binding site [nucleotide binding] 243164000834 reductive dehalogenase; Region: RDH; TIGR02486 243164000835 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 243164000836 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 243164000837 DNA binding site [nucleotide binding] 243164000838 Int/Topo IB signature motif; other site 243164000839 active site 243164000840 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 243164000841 nucleophile elbow; other site 243164000842 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243164000843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164000844 AAA-like domain; Region: AAA_10; pfam12846 243164000845 NurA domain; Region: NurA; cl09134 243164000846 LysE type translocator; Region: LysE; cl00565 243164000847 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 243164000848 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 243164000849 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 243164000850 Cation efflux family; Region: Cation_efflux; cl00316 243164000851 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 243164000852 Protein export membrane protein; Region: SecD_SecF; cl14618 243164000853 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 243164000854 Protein export membrane protein; Region: SecD_SecF; cl14618 243164000855 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 243164000856 metal binding triad [ion binding]; metal-binding site 243164000857 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 243164000858 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243164000859 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 243164000860 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 243164000861 non-specific DNA binding site [nucleotide binding]; other site 243164000862 salt bridge; other site 243164000863 sequence-specific DNA binding site [nucleotide binding]; other site 243164000864 primosome assembly protein PriA; Validated; Region: PRK05580 243164000865 RNA polymerase Rpc34 subunit; Region: RNA_pol_Rpc34; cl02127 243164000866 primosome assembly protein PriA; Validated; Region: PRK05580 243164000867 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 243164000868 ATP binding site [chemical binding]; other site 243164000869 putative Mg++ binding site [ion binding]; other site 243164000870 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 243164000871 ATP-binding site [chemical binding]; other site 243164000872 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 243164000873 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 243164000874 cell division protein MraZ; Reviewed; Region: PRK00326 243164000875 MraZ protein; Region: MraZ; pfam02381 243164000876 MraZ protein; Region: MraZ; pfam02381 243164000877 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 243164000878 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; cl12011 243164000879 cell division protein FtsA; Region: ftsA; TIGR01174 243164000880 Cell division protein FtsA; Region: FtsA; cl11496 243164000881 Cell division protein FtsA; Region: FtsA; cl11496 243164000882 cell division protein FtsZ; Validated; Region: PRK09330 243164000883 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 243164000884 nucleotide binding site [chemical binding]; other site 243164000885 SulA interaction site; other site 243164000886 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 243164000887 ATP cone domain; Region: ATP-cone; pfam03477 243164000888 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 243164000889 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 243164000890 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 243164000891 active site 243164000892 dimer interface [polypeptide binding]; other site 243164000893 effector binding site; other site 243164000894 TSCPD domain; Region: TSCPD; cl14834 243164000895 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 243164000896 Uncharacterized conserved protein [Function unknown]; Region: COG1432 243164000897 LabA_like proteins; Region: LabA_like; cd06167 243164000898 putative metal binding site [ion binding]; other site 243164000899 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 243164000900 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 243164000901 FeS/SAM binding site; other site 243164000902 GatB domain; Region: GatB_Yqey; cl11497 243164000903 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 243164000904 membrane protein insertase; Provisional; Region: PRK01318 243164000905 Mor transcription activator family; Region: Mor; cl02360 243164000906 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 243164000907 Terminase-like family; Region: Terminase_6; pfam03237 243164000908 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 243164000909 Putative zinc ribbon domain; Region: DUF164; pfam02591 243164000910 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 243164000911 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 243164000912 C-terminal peptidase (prc); Region: prc; TIGR00225 243164000913 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 243164000914 protein binding site [polypeptide binding]; other site 243164000915 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 243164000916 Catalytic dyad [active] 243164000917 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 243164000918 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 243164000919 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 243164000920 dimer interface [polypeptide binding]; other site 243164000921 motif 1; other site 243164000922 active site 243164000923 motif 2; other site 243164000924 motif 3; other site 243164000925 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 243164000926 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 243164000927 putative tRNA-binding site [nucleotide binding]; other site 243164000928 B3/4 domain; Region: B3_4; cl11458 243164000929 tRNA synthetase B5 domain; Region: B5; cl08394 243164000930 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 243164000931 dimer interface [polypeptide binding]; other site 243164000932 motif 1; other site 243164000933 motif 3; other site 243164000934 motif 2; other site 243164000935 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 243164000936 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 243164000937 dimer interface [polypeptide binding]; other site 243164000938 substrate binding site [chemical binding]; other site 243164000939 metal binding sites [ion binding]; metal-binding site 243164000940 prolyl-tRNA synthetase; Provisional; Region: PRK09194 243164000941 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 243164000942 dimer interface [polypeptide binding]; other site 243164000943 motif 1; other site 243164000944 active site 243164000945 motif 2; other site 243164000946 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 243164000947 putative deacylase active site [active] 243164000948 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 243164000949 active site 243164000950 motif 3; other site 243164000951 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 243164000952 anticodon binding site; other site 243164000953 GcpE protein; Region: GcpE; pfam04551 243164000954 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 243164000955 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 243164000956 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 243164000957 active site 243164000958 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 243164000959 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 243164000960 putative substrate binding region [chemical binding]; other site 243164000961 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 243164000962 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 243164000963 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 243164000964 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 243164000965 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 243164000966 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 243164000967 catalytic residue [active] 243164000968 putative FPP diphosphate binding site; other site 243164000969 putative FPP binding hydrophobic cleft; other site 243164000970 dimer interface [polypeptide binding]; other site 243164000971 putative IPP diphosphate binding site; other site 243164000972 ribosome recycling factor; Reviewed; Region: frr; PRK00083 243164000973 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 243164000974 hinge region; other site 243164000975 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 243164000976 putative nucleotide binding site [chemical binding]; other site 243164000977 uridine monophosphate binding site [chemical binding]; other site 243164000978 homohexameric interface [polypeptide binding]; other site 243164000979 elongation factor Ts; Reviewed; Region: tsf; PRK12332 243164000980 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 243164000981 Elongation factor TS; Region: EF_TS; pfam00889 243164000982 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 243164000983 rRNA interaction site [nucleotide binding]; other site 243164000984 S8 interaction site; other site 243164000985 putative laminin-1 binding site; other site 243164000986 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 243164000987 putative active site [active] 243164000988 catalytic triad [active] 243164000989 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 243164000990 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 243164000991 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 243164000992 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 243164000993 dimerization interface [polypeptide binding]; other site 243164000994 ATP binding site [chemical binding]; other site 243164000995 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 243164000996 dimerization interface [polypeptide binding]; other site 243164000997 ATP binding site [chemical binding]; other site 243164000998 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 243164000999 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 243164001000 active site 243164001001 multimer interface [polypeptide binding]; other site 243164001002 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 243164001003 iron-sulfur cluster [ion binding]; other site 243164001004 [2Fe-2S] cluster binding site [ion binding]; other site 243164001005 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 243164001006 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 243164001007 active site 243164001008 Predicted methyltransferases [General function prediction only]; Region: COG0313 243164001009 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243164001010 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 243164001011 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 243164001012 active site 243164001013 HIGH motif; other site 243164001014 KMSKS motif; other site 243164001015 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 243164001016 tRNA binding surface [nucleotide binding]; other site 243164001017 anticodon binding site; other site 243164001018 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 243164001019 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 243164001020 substrate binding pocket [chemical binding]; other site 243164001021 chain length determination region; other site 243164001022 substrate-Mg2+ binding site; other site 243164001023 catalytic residues [active] 243164001024 aspartate-rich region 1; other site 243164001025 active site lid residues [active] 243164001026 aspartate-rich region 2; other site 243164001027 FtsH Extracellular; Region: FtsH_ext; pfam06480 243164001028 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 243164001029 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 243164001030 Walker A motif; other site 243164001031 ATP binding site [chemical binding]; other site 243164001032 Walker B motif; other site 243164001033 arginine finger; other site 243164001034 Peptidase family M41; Region: Peptidase_M41; pfam01434 243164001035 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 243164001036 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 243164001037 AP (apurinic/apyrimidinic) site pocket; other site 243164001038 DNA interaction; other site 243164001039 Metal-binding active site; metal-binding site 243164001040 Domain of unknown function DUF143; Region: DUF143; cl00519 243164001041 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 243164001042 active site 243164001043 multimer interface [polypeptide binding]; other site 243164001044 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 243164001045 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 243164001046 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 243164001047 motif II; other site 243164001048 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 243164001049 thiamine monophosphate kinase; Provisional; Region: PRK05731 243164001050 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 243164001051 ATP binding site [chemical binding]; other site 243164001052 dimerization interface [polypeptide binding]; other site 243164001053 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 243164001054 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 243164001055 S-adenosylmethionine binding site [chemical binding]; other site 243164001056 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 243164001057 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 243164001058 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 243164001059 S-adenosylmethionine binding site [chemical binding]; other site 243164001060 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics; Region: DOIS; cd08197 243164001061 active site 243164001062 dimer interface [polypeptide binding]; other site 243164001063 metal binding site [ion binding]; metal-binding site 243164001064 UbiA prenyltransferase family; Region: UbiA; cl00337 243164001065 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 243164001066 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 243164001067 S-adenosylmethionine binding site [chemical binding]; other site 243164001068 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 243164001069 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 243164001070 active site 243164001071 metal binding site [ion binding]; metal-binding site 243164001072 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; cl12011 243164001073 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 243164001074 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 243164001075 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 243164001076 Rubrerythrin [Energy production and conversion]; Region: COG1592 243164001077 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 243164001078 binuclear metal center [ion binding]; other site 243164001079 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 243164001080 iron binding site [ion binding]; other site 243164001081 Ion channel; Region: Ion_trans_2; cl11596 243164001082 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 243164001083 active site 243164001084 NTP binding site [chemical binding]; other site 243164001085 metal binding triad [ion binding]; metal-binding site 243164001086 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 243164001087 nodulation ABC transporter NodI; Provisional; Region: PRK13537 243164001088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164001089 Walker A/P-loop; other site 243164001090 ATP binding site [chemical binding]; other site 243164001091 Q-loop/lid; other site 243164001092 ABC transporter signature motif; other site 243164001093 Walker B; other site 243164001094 D-loop; other site 243164001095 H-loop/switch region; other site 243164001096 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164001097 hypothetical protein; Provisional; Region: PRK01184 243164001098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164001099 active site 243164001100 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 243164001101 catalytic motif [active] 243164001102 Zn binding site [ion binding]; other site 243164001103 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 243164001104 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 243164001105 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 243164001106 trimer interface [polypeptide binding]; other site 243164001107 active site 243164001108 Probable zinc-binding domain; Region: zf-trcl; pfam13451 243164001109 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 243164001110 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 243164001111 Walker A/P-loop; other site 243164001112 ATP binding site [chemical binding]; other site 243164001113 Q-loop/lid; other site 243164001114 ABC transporter signature motif; other site 243164001115 Walker B; other site 243164001116 D-loop; other site 243164001117 H-loop/switch region; other site 243164001118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 243164001119 dimer interface [polypeptide binding]; other site 243164001120 conserved gate region; other site 243164001121 putative PBP binding loops; other site 243164001122 ABC-ATPase subunit interface; other site 243164001123 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 243164001124 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243164001125 substrate binding pocket [chemical binding]; other site 243164001126 membrane-bound complex binding site; other site 243164001127 hinge residues; other site 243164001128 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164001129 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 243164001130 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 243164001131 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 243164001132 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164001133 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 243164001134 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 243164001135 putative substrate binding site [chemical binding]; other site 243164001136 putative ATP binding site [chemical binding]; other site 243164001137 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 243164001138 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 243164001139 Flavoprotein; Region: Flavoprotein; cl08021 243164001140 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 243164001141 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 243164001142 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243164001143 active site 243164001144 HIGH motif; other site 243164001145 nucleotide binding site [chemical binding]; other site 243164001146 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 243164001147 active site 243164001148 KMSKS motif; other site 243164001149 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 243164001150 tRNA binding surface [nucleotide binding]; other site 243164001151 anticodon binding site; other site 243164001152 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 243164001153 PAS domain S-box; Region: sensory_box; TIGR00229 243164001154 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 243164001155 putative active site [active] 243164001156 heme pocket [chemical binding]; other site 243164001157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 243164001158 Histidine kinase; Region: HisKA_3; pfam07730 243164001159 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 243164001160 ATP binding site [chemical binding]; other site 243164001161 Mg2+ binding site [ion binding]; other site 243164001162 G-X-G motif; other site 243164001163 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164001164 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 243164001165 active site 243164001166 phosphorylation site [posttranslational modification] 243164001167 intermolecular recognition site; other site 243164001168 dimerization interface [polypeptide binding]; other site 243164001169 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 243164001170 DNA binding residues [nucleotide binding] 243164001171 dimerization interface [polypeptide binding]; other site 243164001172 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 243164001173 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 243164001174 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 243164001175 nucleotide binding region [chemical binding]; other site 243164001176 ATP-binding site [chemical binding]; other site 243164001177 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 243164001178 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164001179 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 243164001180 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 243164001181 dimer interface [polypeptide binding]; other site 243164001182 glycine-pyridoxal phosphate binding site [chemical binding]; other site 243164001183 active site 243164001184 folate binding site [chemical binding]; other site 243164001185 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 243164001186 Fe-S cluster binding site [ion binding]; other site 243164001187 active site 243164001188 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 243164001189 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164001190 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 243164001191 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 243164001192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164001193 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 243164001194 excinuclease ABC subunit B; Provisional; Region: PRK05298 243164001195 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 243164001196 ATP binding site [chemical binding]; other site 243164001197 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 243164001198 nucleotide binding region [chemical binding]; other site 243164001199 ATP-binding site [chemical binding]; other site 243164001200 Ultra-violet resistance protein B; Region: UvrB; pfam12344 243164001201 UvrB/uvrC motif; Region: UVR; pfam02151 243164001202 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14605 243164001203 RuvA N terminal domain; Region: RuvA_N; pfam01330 243164001204 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 243164001205 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 243164001206 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 243164001207 active site 243164001208 putative DNA-binding cleft [nucleotide binding]; other site 243164001209 dimer interface [polypeptide binding]; other site 243164001210 Domain of unknown function DUF28; Region: DUF28; cl00361 243164001211 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 243164001212 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 243164001213 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 243164001214 putative dimer interface [polypeptide binding]; other site 243164001215 [2Fe-2S] cluster binding site [ion binding]; other site 243164001216 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 243164001217 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; cl14780 243164001218 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; cl14780 243164001219 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 243164001220 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 243164001221 substrate binding site [chemical binding]; other site 243164001222 ligand binding site [chemical binding]; other site 243164001223 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 243164001224 substrate binding site [chemical binding]; other site 243164001225 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 243164001226 isocitrate dehydrogenase; Validated; Region: PRK07362 243164001227 malate dehydrogenase; Reviewed; Region: PRK06223 243164001228 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 243164001229 NAD(P) binding site [chemical binding]; other site 243164001230 dimer interface [polypeptide binding]; other site 243164001231 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243164001232 substrate binding site [chemical binding]; other site 243164001233 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 243164001234 Fumarase C-terminus; Region: Fumerase_C; cl00795 243164001235 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 243164001236 nucleotide binding site/active site [active] 243164001237 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 243164001238 dimer interface [polypeptide binding]; other site 243164001239 ADP-ribose binding site [chemical binding]; other site 243164001240 active site 243164001241 nudix motif; other site 243164001242 metal binding site [ion binding]; metal-binding site 243164001243 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 243164001244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164001245 Coenzyme A binding pocket [chemical binding]; other site 243164001246 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 243164001247 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 243164001248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164001249 Chorismate mutase type II; Region: CM_2; cl00693 243164001250 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 243164001251 Prephenate dehydratase; Region: PDT; pfam00800 243164001252 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 243164001253 putative L-Phe binding site [chemical binding]; other site 243164001254 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 243164001255 Tetramer interface [polypeptide binding]; other site 243164001256 active site 243164001257 FMN-binding site [chemical binding]; other site 243164001258 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 243164001259 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 243164001260 hinge; other site 243164001261 active site 243164001262 shikimate kinase; Reviewed; Region: aroK; PRK00131 243164001263 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 243164001264 ADP binding site [chemical binding]; other site 243164001265 magnesium binding site [ion binding]; other site 243164001266 putative shikimate binding site; other site 243164001267 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 243164001268 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 243164001269 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 243164001270 shikimate binding site; other site 243164001271 NAD(P) binding site [chemical binding]; other site 243164001272 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 243164001273 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 243164001274 active site 243164001275 catalytic residue [active] 243164001276 dimer interface [polypeptide binding]; other site 243164001277 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 243164001278 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 243164001279 active site 243164001280 dimer interface [polypeptide binding]; other site 243164001281 metal binding site [ion binding]; metal-binding site 243164001282 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 243164001283 NeuB family; Region: NeuB; cl00496 243164001284 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 243164001285 S17 interaction site [polypeptide binding]; other site 243164001286 S8 interaction site; other site 243164001287 16S rRNA interaction site [nucleotide binding]; other site 243164001288 streptomycin interaction site [chemical binding]; other site 243164001289 23S rRNA interaction site [nucleotide binding]; other site 243164001290 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 243164001291 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 243164001292 elongation factor G; Reviewed; Region: PRK12739 243164001293 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 243164001294 G1 box; other site 243164001295 putative GEF interaction site [polypeptide binding]; other site 243164001296 GTP/Mg2+ binding site [chemical binding]; other site 243164001297 Switch I region; other site 243164001298 G2 box; other site 243164001299 G3 box; other site 243164001300 Switch II region; other site 243164001301 G4 box; other site 243164001302 G5 box; other site 243164001303 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 243164001304 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 243164001305 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 243164001306 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 243164001307 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 243164001308 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 243164001309 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 243164001310 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 243164001311 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 243164001312 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 243164001313 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 243164001314 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 243164001315 putative translocon binding site; other site 243164001316 protein-rRNA interface [nucleotide binding]; other site 243164001317 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 243164001318 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 243164001319 G-X-X-G motif; other site 243164001320 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 243164001321 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 243164001322 23S rRNA interface [nucleotide binding]; other site 243164001323 5S rRNA interface [nucleotide binding]; other site 243164001324 putative antibiotic binding site [chemical binding]; other site 243164001325 L25 interface [polypeptide binding]; other site 243164001326 L27 interface [polypeptide binding]; other site 243164001327 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 243164001328 23S rRNA interface [nucleotide binding]; other site 243164001329 putative translocon interaction site; other site 243164001330 signal recognition particle (SRP54) interaction site; other site 243164001331 L23 interface [polypeptide binding]; other site 243164001332 trigger factor interaction site; other site 243164001333 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 243164001334 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 243164001335 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 243164001336 KOW motif; Region: KOW; cl00354 243164001337 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 243164001338 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 243164001339 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 243164001340 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 243164001341 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 243164001342 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 243164001343 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 243164001344 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 243164001345 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 243164001346 5S rRNA interface [nucleotide binding]; other site 243164001347 L27 interface [polypeptide binding]; other site 243164001348 23S rRNA interface [nucleotide binding]; other site 243164001349 L5 interface [polypeptide binding]; other site 243164001350 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 243164001351 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 243164001352 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 243164001353 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 243164001354 23S rRNA binding site [nucleotide binding]; other site 243164001355 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 243164001356 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 243164001357 SecY translocase; Region: SecY; pfam00344 243164001358 adenylate kinase; Reviewed; Region: adk; PRK00279 243164001359 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 243164001360 AMP-binding site [chemical binding]; other site 243164001361 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 243164001362 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 243164001363 active site 243164001364 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 243164001365 rRNA binding site [nucleotide binding]; other site 243164001366 predicted 30S ribosome binding site; other site 243164001367 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 243164001368 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 243164001369 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 243164001370 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 243164001371 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 243164001372 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 243164001373 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 243164001374 RNA binding surface [nucleotide binding]; other site 243164001375 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 243164001376 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 243164001377 alphaNTD - beta interaction site [polypeptide binding]; other site 243164001378 alphaNTD homodimer interface [polypeptide binding]; other site 243164001379 alphaNTD - beta' interaction site [polypeptide binding]; other site 243164001380 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 243164001381 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 243164001382 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 243164001383 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 243164001384 dimerization interface 3.5A [polypeptide binding]; other site 243164001385 active site 243164001386 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 243164001387 23S rRNA interface [nucleotide binding]; other site 243164001388 L3 interface [polypeptide binding]; other site 243164001389 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 243164001390 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 243164001391 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 243164001392 dimer interface [polypeptide binding]; other site 243164001393 active site 243164001394 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 243164001395 dimer interface [polypeptide binding]; other site 243164001396 active site 243164001397 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 243164001398 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 243164001399 active site 243164001400 substrate binding site [chemical binding]; other site 243164001401 metal binding site [ion binding]; metal-binding site 243164001402 S-adenosylmethionine synthetase; Validated; Region: PRK05250 243164001403 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 243164001404 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 243164001405 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 243164001406 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 243164001407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164001408 oligomerization interface [polypeptide binding]; other site 243164001409 active site 243164001410 NAD+ binding site [chemical binding]; other site 243164001411 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; cl15691 243164001412 Predicted kinase [General function prediction only]; Region: COG0645 243164001413 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 243164001414 ATP-binding site [chemical binding]; other site 243164001415 Gluconate-6-phosphate binding site [chemical binding]; other site 243164001416 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 243164001417 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243164001418 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 243164001419 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 243164001420 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164001421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164001422 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 243164001423 Walker A/P-loop; other site 243164001424 ATP binding site [chemical binding]; other site 243164001425 Q-loop/lid; other site 243164001426 ABC transporter signature motif; other site 243164001427 Walker B; other site 243164001428 D-loop; other site 243164001429 H-loop/switch region; other site 243164001430 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 243164001431 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 243164001432 active site 2 [active] 243164001433 active site 1 [active] 243164001434 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243164001435 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164001436 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 243164001437 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 243164001438 PAC2 family; Region: PAC2; cl00847 243164001439 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 243164001440 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 243164001441 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 243164001442 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 243164001443 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 243164001444 This archaeal PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar...; Region: PGM_like1; cd03087 243164001445 active site 243164001446 substrate binding site [chemical binding]; other site 243164001447 metal binding site [ion binding]; metal-binding site 243164001448 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 243164001449 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 243164001450 active site 243164001451 Substrate binding site; other site 243164001452 Mg++ binding site; other site 243164001453 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 243164001454 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 243164001455 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 243164001456 active site 243164001457 Substrate binding site; other site 243164001458 Mg++ binding site; other site 243164001459 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 243164001460 putative trimer interface [polypeptide binding]; other site 243164001461 putative CoA binding site [chemical binding]; other site 243164001462 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 243164001463 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 243164001464 glutaminase active site [active] 243164001465 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 243164001466 dimer interface [polypeptide binding]; other site 243164001467 active site 243164001468 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 243164001469 dimer interface [polypeptide binding]; other site 243164001470 active site 243164001471 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 243164001472 substrate binding site [chemical binding]; other site 243164001473 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 243164001474 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 243164001475 motif II; other site 243164001476 diaminopimelate decarboxylase; Region: lysA; TIGR01048 243164001477 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 243164001478 active site 243164001479 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243164001480 substrate binding site [chemical binding]; other site 243164001481 catalytic residues [active] 243164001482 dimer interface [polypeptide binding]; other site 243164001483 DNA polymerase III subunit delta'; Validated; Region: PRK08058 243164001484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164001485 PSP1 C-terminal conserved region; Region: PSP1; cl00770 243164001486 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 243164001487 active site 243164001488 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 243164001489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 243164001490 Walker A motif; other site 243164001491 ATP binding site [chemical binding]; other site 243164001492 Walker B motif; other site 243164001493 arginine finger; other site 243164001494 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 243164001495 Walker A motif; other site 243164001496 ATP binding site [chemical binding]; other site 243164001497 Walker B motif; other site 243164001498 arginine finger; other site 243164001499 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 243164001500 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 243164001501 replicative DNA helicase; Region: DnaB; TIGR00665 243164001502 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 243164001503 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 243164001504 Walker A motif; other site 243164001505 ATP binding site [chemical binding]; other site 243164001506 Walker B motif; other site 243164001507 DNA binding loops [nucleotide binding] 243164001508 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 243164001509 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 243164001510 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 243164001511 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 243164001512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164001513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164001514 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 243164001515 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243164001516 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 243164001517 amidohydrolase; Region: amidohydrolases; TIGR01891 243164001518 metal binding site [ion binding]; metal-binding site 243164001519 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 243164001520 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 243164001521 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 243164001522 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 243164001523 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243164001524 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 243164001525 non-specific DNA binding site [nucleotide binding]; other site 243164001526 salt bridge; other site 243164001527 sequence-specific DNA binding site [nucleotide binding]; other site 243164001528 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 243164001529 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 243164001530 Walker A/P-loop; other site 243164001531 ATP binding site [chemical binding]; other site 243164001532 Q-loop/lid; other site 243164001533 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 243164001534 ABC transporter signature motif; other site 243164001535 Walker B; other site 243164001536 D-loop; other site 243164001537 H-loop/switch region; other site 243164001538 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 243164001539 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 243164001540 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 243164001541 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243164001542 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 243164001543 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 243164001544 DNA binding residues [nucleotide binding] 243164001545 DNA primase; Validated; Region: dnaG; PRK05667 243164001546 CHC2 zinc finger; Region: zf-CHC2; cl15369 243164001547 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 243164001548 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 243164001549 active site 243164001550 metal binding site [ion binding]; metal-binding site 243164001551 interdomain interaction site; other site 243164001552 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 243164001553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243164001554 Zn2+ binding site [ion binding]; other site 243164001555 Mg2+ binding site [ion binding]; other site 243164001556 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243164001557 phosphoenolpyruvate synthase; Validated; Region: PRK06464 243164001558 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 243164001559 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 243164001560 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243164001561 ATP synthase A chain; Region: ATP-synt_A; cl00413 243164001562 ATP synthase subunit C; Region: ATP-synt_C; cl00466 243164001563 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 243164001564 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 243164001565 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 243164001566 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 243164001567 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 243164001568 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243164001569 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 243164001570 beta subunit interaction interface [polypeptide binding]; other site 243164001571 Walker A motif; other site 243164001572 ATP binding site [chemical binding]; other site 243164001573 Walker B motif; other site 243164001574 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 243164001575 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 243164001576 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 243164001577 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 243164001578 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243164001579 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 243164001580 alpha subunit interaction interface [polypeptide binding]; other site 243164001581 Walker A motif; other site 243164001582 ATP binding site [chemical binding]; other site 243164001583 Walker B motif; other site 243164001584 inhibitor binding site; inhibition site 243164001585 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 243164001586 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 243164001587 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 243164001588 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 243164001589 RimM N-terminal domain; Region: RimM; pfam01782 243164001590 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; cl09959 243164001591 hypothetical protein; Provisional; Region: PRK00468; cl00794 243164001592 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 243164001593 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 243164001594 Active_site [active] 243164001595 peptide chain release factor 2; Validated; Region: prfB; PRK00578 243164001596 RF-1 domain; Region: RF-1; cl02875 243164001597 RF-1 domain; Region: RF-1; cl02875 243164001598 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 243164001599 Zn binding site [ion binding]; other site 243164001600 hypothetical protein; Reviewed; Region: PRK00024 243164001601 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 243164001602 MPN+ (JAMM) motif; other site 243164001603 Zinc-binding site [ion binding]; other site 243164001604 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 243164001605 peptide binding site [polypeptide binding]; other site 243164001606 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 243164001607 transaminase; Validated; Region: PRK07324 243164001608 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 243164001609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164001610 homodimer interface [polypeptide binding]; other site 243164001611 catalytic residue [active] 243164001612 seryl-tRNA synthetase; Provisional; Region: PRK05431 243164001613 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 243164001614 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 243164001615 dimer interface [polypeptide binding]; other site 243164001616 active site 243164001617 motif 1; other site 243164001618 motif 2; other site 243164001619 motif 3; other site 243164001620 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 243164001621 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 243164001622 dimer interface [polypeptide binding]; other site 243164001623 putative anticodon binding site; other site 243164001624 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 243164001625 motif 1; other site 243164001626 active site 243164001627 motif 2; other site 243164001628 motif 3; other site 243164001629 Recombination protein O N terminal; Region: RecO_N; pfam11967 243164001630 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 243164001631 Recombination protein O C terminal; Region: RecO_C; pfam02565 243164001632 A new structural DNA glycosylase; Region: AlkD_like; cd06561 243164001633 active site 243164001634 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 243164001635 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 243164001636 recombination protein RecR; Reviewed; Region: recR; PRK00076 243164001637 RecR protein; Region: RecR; pfam02132 243164001638 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 243164001639 putative active site [active] 243164001640 putative metal-binding site [ion binding]; other site 243164001641 tetramer interface [polypeptide binding]; other site 243164001642 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 243164001643 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 243164001644 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 243164001645 Walker A motif; other site 243164001646 ATP binding site [chemical binding]; other site 243164001647 Walker B motif; other site 243164001648 arginine finger; other site 243164001649 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 243164001650 Protein of unknown function(DUF2089); Region: DUF2089; pfam09862 243164001651 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; cl15358 243164001652 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_type2; cd02202 243164001653 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 243164001654 nucleotide binding site [chemical binding]; other site 243164001655 SulA interaction site; other site 243164001656 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 243164001657 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 243164001658 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 243164001659 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 243164001660 enolase; Provisional; Region: eno; PRK00077 243164001661 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 243164001662 dimer interface [polypeptide binding]; other site 243164001663 metal binding site [ion binding]; metal-binding site 243164001664 substrate binding pocket [chemical binding]; other site 243164001665 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 243164001666 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 243164001667 putative active site [active] 243164001668 catalytic residue [active] 243164001669 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 243164001670 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 243164001671 nucleotide binding pocket [chemical binding]; other site 243164001672 K-X-D-G motif; other site 243164001673 catalytic site [active] 243164001674 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 243164001675 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 243164001676 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 243164001677 Dimer interface [polypeptide binding]; other site 243164001678 BRCT sequence motif; other site 243164001679 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 243164001680 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 243164001681 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 243164001682 predicted active site [active] 243164001683 catalytic triad [active] 243164001684 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 243164001685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164001686 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 243164001687 putative L-serine binding site [chemical binding]; other site 243164001688 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 243164001689 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 243164001690 homodimer interface [polypeptide binding]; other site 243164001691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164001692 catalytic residue [active] 243164001693 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 243164001694 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 243164001695 active site 243164001696 HIGH motif; other site 243164001697 dimer interface [polypeptide binding]; other site 243164001698 KMSKS motif; other site 243164001699 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 243164001700 RNA binding surface [nucleotide binding]; other site 243164001701 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 243164001702 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 243164001703 active site 243164001704 Riboflavin kinase; Region: Flavokinase; cl03312 243164001705 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 243164001706 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 243164001707 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 243164001708 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 243164001709 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 243164001710 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 243164001711 RPB12 interaction site [polypeptide binding]; other site 243164001712 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 243164001713 RPB10 interaction site [polypeptide binding]; other site 243164001714 RPB11 interaction site [polypeptide binding]; other site 243164001715 RPB3 interaction site [polypeptide binding]; other site 243164001716 RPB12 interaction site [polypeptide binding]; other site 243164001717 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 243164001718 RPB1 interaction site [polypeptide binding]; other site 243164001719 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 243164001720 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 243164001721 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 243164001722 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 243164001723 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 243164001724 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 243164001725 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 243164001726 cleft; other site 243164001727 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 243164001728 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 243164001729 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 243164001730 DNA binding site [nucleotide binding] 243164001731 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 243164001732 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 243164001733 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 243164001734 Walker A motif; other site 243164001735 ATP binding site [chemical binding]; other site 243164001736 Walker B motif; other site 243164001737 arginine finger; other site 243164001738 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 243164001739 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 243164001740 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 243164001741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164001742 Coenzyme A binding pocket [chemical binding]; other site 243164001743 Predicted permease; Region: DUF318; cl00487 243164001744 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 243164001745 S-adenosylmethionine binding site [chemical binding]; other site 243164001746 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 243164001747 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 243164001748 FeS/SAM binding site; other site 243164001749 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164001750 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 243164001751 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 243164001752 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 243164001753 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 243164001754 Endopeptidases belonging to F420-reducing hydrogenases group. These hydrogenases from methanogens are encoded by the fru, frc, or frh genes. Sequence comparison indicates that fruD and frcD gene products from Methanococcus voltae are similar to HycI...; Region: H2MP_F420-Reduc; cd06064 243164001755 nickel binding site [ion binding]; other site 243164001756 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 243164001757 catalytic residues [active] 243164001758 LysE type translocator; Region: LysE; cl00565 243164001759 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 243164001760 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 243164001761 FeS/SAM binding site; other site 243164001762 Radical SAM superfamily; Region: Radical_SAM; pfam04055 243164001763 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 243164001764 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 243164001765 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 243164001766 active site 243164001767 dimer interface [polypeptide binding]; other site 243164001768 effector binding site; other site 243164001769 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 243164001770 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 243164001771 active site 243164001772 phosphorylation site [posttranslational modification] 243164001773 intermolecular recognition site; other site 243164001774 dimerization interface [polypeptide binding]; other site 243164001775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243164001776 Zn2+ binding site [ion binding]; other site 243164001777 Mg2+ binding site [ion binding]; other site 243164001778 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 243164001779 hypothetical protein; Provisional; Region: PRK13560 243164001780 putative active site [active] 243164001781 heme pocket [chemical binding]; other site 243164001782 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 243164001783 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 243164001784 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 243164001785 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 243164001786 dimer interface [polypeptide binding]; other site 243164001787 phosphorylation site [posttranslational modification] 243164001788 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 243164001789 ATP binding site [chemical binding]; other site 243164001790 Mg2+ binding site [ion binding]; other site 243164001791 G-X-G motif; other site 243164001792 Flagellin N-methylase; Region: FliB; cl00497 243164001793 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 243164001794 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 243164001795 FeS/SAM binding site; other site 243164001796 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 243164001797 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 243164001798 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 243164001799 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243164001800 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 243164001801 metal binding site 2 [ion binding]; metal-binding site 243164001802 putative DNA binding helix; other site 243164001803 metal binding site 1 [ion binding]; metal-binding site 243164001804 dimer interface [polypeptide binding]; other site 243164001805 structural Zn2+ binding site [ion binding]; other site 243164001806 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 243164001807 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 243164001808 putative metal binding residues [ion binding]; other site 243164001809 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 243164001810 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 243164001811 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 243164001812 ABC-ATPase subunit interface; other site 243164001813 dimer interface [polypeptide binding]; other site 243164001814 putative PBP binding regions; other site 243164001815 cell division protein FtsZ; Validated; Region: PRK09330 243164001816 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 243164001817 nucleotide binding site [chemical binding]; other site 243164001818 SulA interaction site; other site 243164001819 cell division protein FtsA; Region: ftsA; TIGR01174 243164001820 Cell division protein FtsA; Region: FtsA; cl11496 243164001821 Cell division protein FtsA; Region: FtsA; cl11496 243164001822 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 243164001823 Ligand Binding Site [chemical binding]; other site 243164001824 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 243164001825 Ligand Binding Site [chemical binding]; other site 243164001826 Putative cyclase; Region: Cyclase; cl00814 243164001827 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 243164001828 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 243164001829 substrate binding site [chemical binding]; other site 243164001830 hexamer interface [polypeptide binding]; other site 243164001831 metal binding site [ion binding]; metal-binding site 243164001832 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 243164001833 transketolase; Reviewed; Region: PRK05899 243164001834 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 243164001835 TPP-binding site [chemical binding]; other site 243164001836 dimer interface [polypeptide binding]; other site 243164001837 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 243164001838 PYR/PP interface [polypeptide binding]; other site 243164001839 dimer interface [polypeptide binding]; other site 243164001840 TPP binding site [chemical binding]; other site 243164001841 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243164001842 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 243164001843 putative FMN binding site [chemical binding]; other site 243164001844 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 243164001845 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 243164001846 S-adenosylmethionine binding site [chemical binding]; other site 243164001847 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 243164001848 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 243164001849 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 243164001850 cobalamin binding residues [chemical binding]; other site 243164001851 putative BtuC binding residues; other site 243164001852 dimer interface [polypeptide binding]; other site 243164001853 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 243164001854 dimer interface [polypeptide binding]; other site 243164001855 putative PBP binding regions; other site 243164001856 ABC-ATPase subunit interface; other site 243164001857 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243164001858 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243164001859 Walker A/P-loop; other site 243164001860 ATP binding site [chemical binding]; other site 243164001861 Q-loop/lid; other site 243164001862 ABC transporter signature motif; other site 243164001863 Walker B; other site 243164001864 D-loop; other site 243164001865 H-loop/switch region; other site 243164001866 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164001867 CobD/Cbib protein; Region: CobD_Cbib; cl00561 243164001868 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 243164001869 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 243164001870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164001871 homodimer interface [polypeptide binding]; other site 243164001872 catalytic residue [active] 243164001873 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 243164001874 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 243164001875 putative dimer interface [polypeptide binding]; other site 243164001876 active site pocket [active] 243164001877 putative cataytic base [active] 243164001878 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 243164001879 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 243164001880 catalytic core [active] 243164001881 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 243164001882 homotrimer interface [polypeptide binding]; other site 243164001883 Walker A motif; other site 243164001884 GTP binding site [chemical binding]; other site 243164001885 Walker B motif; other site 243164001886 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 243164001887 catalytic residues [active] 243164001888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 243164001889 Histidine kinase; Region: HisKA_3; pfam07730 243164001890 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 243164001891 ATP binding site [chemical binding]; other site 243164001892 Mg2+ binding site [ion binding]; other site 243164001893 G-X-G motif; other site 243164001894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164001895 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 243164001896 active site 243164001897 phosphorylation site [posttranslational modification] 243164001898 intermolecular recognition site; other site 243164001899 dimerization interface [polypeptide binding]; other site 243164001900 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 243164001901 DNA binding residues [nucleotide binding] 243164001902 dimerization interface [polypeptide binding]; other site 243164001903 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 243164001904 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 243164001905 Putative Fe-S cluster; Region: FeS; pfam04060 243164001906 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 243164001907 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 243164001908 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 243164001909 ACS interaction site; other site 243164001910 CODH interaction site; other site 243164001911 metal cluster binding site [ion binding]; other site 243164001912 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 243164001913 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 243164001914 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 243164001915 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 243164001916 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 243164001917 homodimer interface [polypeptide binding]; other site 243164001918 NADP binding site [chemical binding]; other site 243164001919 substrate binding site [chemical binding]; other site 243164001920 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 243164001921 P-loop; other site 243164001922 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 243164001923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164001924 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 243164001925 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 243164001926 catalytic loop [active] 243164001927 iron binding site [ion binding]; other site 243164001928 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 243164001929 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 243164001930 Potassium binding sites [ion binding]; other site 243164001931 Cesium cation binding sites [ion binding]; other site 243164001932 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 243164001933 dimer interface [polypeptide binding]; other site 243164001934 anticodon binding site; other site 243164001935 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 243164001936 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 243164001937 Ligand Binding Site [chemical binding]; other site 243164001938 Putative cyclase; Region: Cyclase; cl00814 243164001939 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 243164001940 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 243164001941 substrate binding site [chemical binding]; other site 243164001942 hexamer interface [polypeptide binding]; other site 243164001943 metal binding site [ion binding]; metal-binding site 243164001944 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 243164001945 transketolase; Reviewed; Region: PRK05899 243164001946 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 243164001947 TPP-binding site [chemical binding]; other site 243164001948 dimer interface [polypeptide binding]; other site 243164001949 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 243164001950 PYR/PP interface [polypeptide binding]; other site 243164001951 dimer interface [polypeptide binding]; other site 243164001952 TPP binding site [chemical binding]; other site 243164001953 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243164001954 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 243164001955 putative FMN binding site [chemical binding]; other site 243164001956 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 243164001957 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 243164001958 S-adenosylmethionine binding site [chemical binding]; other site 243164001959 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 243164001960 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 243164001961 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 243164001962 cobalamin binding residues [chemical binding]; other site 243164001963 putative BtuC binding residues; other site 243164001964 dimer interface [polypeptide binding]; other site 243164001965 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 243164001966 dimer interface [polypeptide binding]; other site 243164001967 putative PBP binding regions; other site 243164001968 ABC-ATPase subunit interface; other site 243164001969 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243164001970 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243164001971 Walker A/P-loop; other site 243164001972 ATP binding site [chemical binding]; other site 243164001973 Q-loop/lid; other site 243164001974 ABC transporter signature motif; other site 243164001975 Walker B; other site 243164001976 D-loop; other site 243164001977 H-loop/switch region; other site 243164001978 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164001979 CobD/Cbib protein; Region: CobD_Cbib; cl00561 243164001980 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 243164001981 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 243164001982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164001983 homodimer interface [polypeptide binding]; other site 243164001984 catalytic residue [active] 243164001985 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 243164001986 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 243164001987 putative dimer interface [polypeptide binding]; other site 243164001988 active site pocket [active] 243164001989 putative cataytic base [active] 243164001990 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 243164001991 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 243164001992 catalytic core [active] 243164001993 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 243164001994 homotrimer interface [polypeptide binding]; other site 243164001995 Walker A motif; other site 243164001996 GTP binding site [chemical binding]; other site 243164001997 Walker B motif; other site 243164001998 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 243164001999 catalytic residues [active] 243164002000 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164002001 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 243164002002 active site 243164002003 phosphorylation site [posttranslational modification] 243164002004 intermolecular recognition site; other site 243164002005 dimerization interface [polypeptide binding]; other site 243164002006 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 243164002007 DNA binding residues [nucleotide binding] 243164002008 dimerization interface [polypeptide binding]; other site 243164002009 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 243164002010 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 243164002011 Putative Fe-S cluster; Region: FeS; pfam04060 243164002012 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 243164002013 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 243164002014 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 243164002015 ACS interaction site; other site 243164002016 CODH interaction site; other site 243164002017 metal cluster binding site [ion binding]; other site 243164002018 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 243164002019 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 243164002020 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 243164002021 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 243164002022 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 243164002023 homodimer interface [polypeptide binding]; other site 243164002024 NADP binding site [chemical binding]; other site 243164002025 substrate binding site [chemical binding]; other site 243164002026 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 243164002027 P-loop; other site 243164002028 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 243164002029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002030 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 243164002031 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 243164002032 catalytic loop [active] 243164002033 iron binding site [ion binding]; other site 243164002034 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 243164002035 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 243164002036 Potassium binding sites [ion binding]; other site 243164002037 Cesium cation binding sites [ion binding]; other site 243164002038 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 243164002039 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 243164002040 dimer interface [polypeptide binding]; other site 243164002041 anticodon binding site; other site 243164002042 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 243164002043 motif 1; other site 243164002044 dimer interface [polypeptide binding]; other site 243164002045 active site 243164002046 motif 2; other site 243164002047 GAD domain; Region: GAD; pfam02938 243164002048 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 243164002049 motif 3; other site 243164002050 trigger factor; Region: tig; TIGR00115 243164002051 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 243164002052 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 243164002053 oligomer interface [polypeptide binding]; other site 243164002054 active site residues [active] 243164002055 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 243164002056 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 243164002057 substrate binding site [chemical binding]; other site 243164002058 ATP binding site [chemical binding]; other site 243164002059 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 243164002060 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 243164002061 active site 243164002062 substrate binding site [chemical binding]; other site 243164002063 cosubstrate binding site; other site 243164002064 catalytic site [active] 243164002065 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 243164002066 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 243164002067 translation elongation factor P; Region: efp; TIGR00038 243164002068 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 243164002069 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 243164002070 RNA binding site [nucleotide binding]; other site 243164002071 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 243164002072 RNA binding site [nucleotide binding]; other site 243164002073 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 243164002074 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 243164002075 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 243164002076 active site 243164002077 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 243164002078 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 243164002079 Int/Topo IB signature motif; other site 243164002080 active site 243164002081 DNA topoisomerase I; Validated; Region: PRK05582 243164002082 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 243164002083 active site 243164002084 interdomain interaction site; other site 243164002085 putative metal-binding site [ion binding]; other site 243164002086 nucleotide binding site [chemical binding]; other site 243164002087 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 243164002088 domain I; other site 243164002089 DNA binding groove [nucleotide binding] 243164002090 phosphate binding site [ion binding]; other site 243164002091 domain II; other site 243164002092 domain III; other site 243164002093 nucleotide binding site [chemical binding]; other site 243164002094 catalytic site [active] 243164002095 domain IV; other site 243164002096 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243164002097 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243164002098 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 243164002099 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 243164002100 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 243164002101 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 243164002102 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 243164002103 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 243164002104 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 243164002105 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 243164002106 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 243164002107 dimer interface [polypeptide binding]; other site 243164002108 PYR/PP interface [polypeptide binding]; other site 243164002109 TPP binding site [chemical binding]; other site 243164002110 substrate binding site [chemical binding]; other site 243164002111 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243164002112 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 243164002113 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 243164002114 TPP-binding site [chemical binding]; other site 243164002115 putative dimer interface [polypeptide binding]; other site 243164002116 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 243164002117 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 243164002118 putative dimer interface [polypeptide binding]; other site 243164002119 [2Fe-2S] cluster binding site [ion binding]; other site 243164002120 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 243164002121 dimer interface [polypeptide binding]; other site 243164002122 [2Fe-2S] cluster binding site [ion binding]; other site 243164002123 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 243164002124 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 243164002125 SLBB domain; Region: SLBB; pfam10531 243164002126 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 243164002127 4Fe-4S binding domain; Region: Fer4; cl02805 243164002128 hypothetical protein; Provisional; Region: PRK13795 243164002129 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 243164002130 catalytic loop [active] 243164002131 iron binding site [ion binding]; other site 243164002132 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 243164002133 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 243164002134 4Fe-4S binding domain; Region: Fer4; cl02805 243164002135 mercuric reductase; Validated; Region: PRK06370 243164002136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002138 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243164002139 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 243164002140 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 243164002141 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 243164002142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002143 NAD(P) binding site [chemical binding]; other site 243164002144 active site 243164002145 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 243164002146 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 243164002147 G1 box; other site 243164002148 GTP/Mg2+ binding site [chemical binding]; other site 243164002149 Switch I region; other site 243164002150 G2 box; other site 243164002151 G3 box; other site 243164002152 Switch II region; other site 243164002153 G4 box; other site 243164002154 G5 box; other site 243164002155 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 243164002156 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 243164002157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164002158 homodimer interface [polypeptide binding]; other site 243164002159 catalytic residue [active] 243164002160 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 243164002161 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 243164002162 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 243164002163 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 243164002164 IPP transferase; Region: IPPT; cl00403 243164002165 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 243164002166 substrate binding site [chemical binding]; other site 243164002167 dimer interface [polypeptide binding]; other site 243164002168 catalytic triad [active] 243164002169 Sulfatase; Region: Sulfatase; cl10460 243164002170 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 243164002171 Phosphoglycerate kinase; Region: PGK; pfam00162 243164002172 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 243164002173 substrate binding site [chemical binding]; other site 243164002174 hinge regions; other site 243164002175 ADP binding site [chemical binding]; other site 243164002176 catalytic site [active] 243164002177 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 243164002178 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 243164002179 TPP-binding site; other site 243164002180 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 243164002181 PYR/PP interface [polypeptide binding]; other site 243164002182 dimer interface [polypeptide binding]; other site 243164002183 TPP binding site [chemical binding]; other site 243164002184 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243164002185 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 243164002186 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164002187 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 243164002188 23S rRNA binding site [nucleotide binding]; other site 243164002189 L21 binding site [polypeptide binding]; other site 243164002190 L13 binding site [polypeptide binding]; other site 243164002191 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 243164002192 translation initiation factor IF-3; Region: infC; TIGR00168 243164002193 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 243164002194 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 243164002195 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 243164002196 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 243164002197 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 243164002198 active site 243164002199 dimer interface [polypeptide binding]; other site 243164002200 motif 1; other site 243164002201 motif 2; other site 243164002202 motif 3; other site 243164002203 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 243164002204 anticodon binding site; other site 243164002205 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 243164002206 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 243164002207 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243164002208 catalytic residue [active] 243164002209 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243164002210 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 243164002211 active site 243164002212 catalytic residues [active] 243164002213 metal binding site [ion binding]; metal-binding site 243164002214 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 243164002215 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 243164002216 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 243164002217 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 243164002218 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 243164002219 Chloroplast import component protein (Tic20); Region: Tic20; cl09892 243164002220 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 243164002221 active site 243164002222 putative substrate binding region [chemical binding]; other site 243164002223 FOG: CBS domain [General function prediction only]; Region: COG0517 243164002224 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 243164002225 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 243164002226 domain; Region: GreA_GreB_N; pfam03449 243164002227 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 243164002228 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 243164002229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002231 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 243164002232 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 243164002233 active site 243164002234 putative substrate binding region [chemical binding]; other site 243164002235 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 243164002236 ThiC family; Region: ThiC; cl08031 243164002237 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 243164002238 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; cl12011 243164002239 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 243164002240 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 243164002241 Walker A motif; other site 243164002242 ATP binding site [chemical binding]; other site 243164002243 Walker B motif; other site 243164002244 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 243164002245 RxxxH motif; other site 243164002246 thymidylate kinase; Validated; Region: tmk; PRK00698 243164002247 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 243164002248 TMP-binding site; other site 243164002249 ATP-binding site [chemical binding]; other site 243164002250 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 243164002251 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 243164002252 Ligand Binding Site [chemical binding]; other site 243164002253 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 243164002254 RNA/DNA hybrid binding site [nucleotide binding]; other site 243164002255 active site 243164002256 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 243164002257 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 243164002258 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 243164002259 thiamine phosphate binding site [chemical binding]; other site 243164002260 active site 243164002261 pyrophosphate binding site [ion binding]; other site 243164002262 haloacid dehalogenase superfamily protein; Provisional; Region: PRK14562 243164002263 Translin family; Region: Translin; cl00957 243164002264 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 243164002265 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 243164002266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164002267 glycyl-tRNA synthetase; Provisional; Region: PRK04173 243164002268 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 243164002269 dimer interface [polypeptide binding]; other site 243164002270 motif 1; other site 243164002271 active site 243164002272 motif 2; other site 243164002273 motif 3; other site 243164002274 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 243164002275 anticodon binding site; other site 243164002276 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 243164002277 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 243164002278 active site 243164002279 metal binding site [ion binding]; metal-binding site 243164002280 DNA binding site [nucleotide binding] 243164002281 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 243164002282 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 243164002283 RNA binding surface [nucleotide binding]; other site 243164002284 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 243164002285 active site 243164002286 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164002287 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 243164002288 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 243164002289 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 243164002290 active site 243164002291 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 243164002292 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164002293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002294 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 243164002295 Walker A/P-loop; other site 243164002296 ATP binding site [chemical binding]; other site 243164002297 Q-loop/lid; other site 243164002298 ABC transporter signature motif; other site 243164002299 Walker B; other site 243164002300 D-loop; other site 243164002301 H-loop/switch region; other site 243164002302 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 243164002303 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 243164002304 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164002305 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 243164002306 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 243164002307 Survival protein SurE; Region: SurE; cl00448 243164002308 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 243164002309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002310 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 243164002311 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 243164002312 tetramerization interface [polypeptide binding]; other site 243164002313 active site 243164002314 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 243164002315 oligomerization interface [polypeptide binding]; other site 243164002316 active site 243164002317 metal binding site [ion binding]; metal-binding site 243164002318 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 243164002319 Pantoate-beta-alanine ligase; Region: PanC; cd00560 243164002320 active site 243164002321 ATP-binding site [chemical binding]; other site 243164002322 pantoate-binding site; other site 243164002323 HXXH motif; other site 243164002324 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 243164002325 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243164002326 putative substrate translocation pore; other site 243164002327 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 243164002328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002330 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 243164002331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002332 Walker A/P-loop; other site 243164002333 ATP binding site [chemical binding]; other site 243164002334 Q-loop/lid; other site 243164002335 ABC transporter signature motif; other site 243164002336 Walker B; other site 243164002337 D-loop; other site 243164002338 H-loop/switch region; other site 243164002339 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164002340 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 243164002341 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 243164002342 Walker A/P-loop; other site 243164002343 ATP binding site [chemical binding]; other site 243164002344 Q-loop/lid; other site 243164002345 ABC transporter signature motif; other site 243164002346 Walker B; other site 243164002347 D-loop; other site 243164002348 H-loop/switch region; other site 243164002349 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 243164002350 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243164002351 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 243164002352 Walker A/P-loop; other site 243164002353 ATP binding site [chemical binding]; other site 243164002354 Q-loop/lid; other site 243164002355 ABC transporter signature motif; other site 243164002356 Walker B; other site 243164002357 D-loop; other site 243164002358 H-loop/switch region; other site 243164002359 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 243164002360 dimerization interface [polypeptide binding]; other site 243164002361 active site 243164002362 Archease protein family (DUF101/UPF0211); Region: Archease; cl00606 243164002363 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; cl14780 243164002364 hypothetical protein; Reviewed; Region: PRK09588 243164002365 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 243164002366 putative FMN binding site [chemical binding]; other site 243164002367 NADPH bind site [chemical binding]; other site 243164002368 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 243164002369 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 243164002370 active site 243164002371 catalytic residues [active] 243164002372 metal binding site [ion binding]; metal-binding site 243164002373 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 243164002374 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 243164002375 tartrate dehydrogenase; Provisional; Region: PRK08194 243164002376 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 243164002377 substrate binding site [chemical binding]; other site 243164002378 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 243164002379 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 243164002380 substrate binding site [chemical binding]; other site 243164002381 ligand binding site [chemical binding]; other site 243164002382 MgtC family; Region: MgtC; cl12207 243164002383 2-isopropylmalate synthase; Validated; Region: PRK00915 243164002384 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 243164002385 active site 243164002386 catalytic residues [active] 243164002387 metal binding site [ion binding]; metal-binding site 243164002388 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 243164002389 ketol-acid reductoisomerase; Provisional; Region: PRK05479 243164002390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002391 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 243164002392 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 243164002393 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 243164002394 putative valine binding site [chemical binding]; other site 243164002395 dimer interface [polypeptide binding]; other site 243164002396 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 243164002397 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 243164002398 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 243164002399 PYR/PP interface [polypeptide binding]; other site 243164002400 dimer interface [polypeptide binding]; other site 243164002401 TPP binding site [chemical binding]; other site 243164002402 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 243164002403 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 243164002404 TPP-binding site [chemical binding]; other site 243164002405 dimer interface [polypeptide binding]; other site 243164002406 Dehydratase family; Region: ILVD_EDD; cl00340 243164002407 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 243164002408 GMP synthase; Reviewed; Region: guaA; PRK00074 243164002409 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 243164002410 AMP/PPi binding site [chemical binding]; other site 243164002411 candidate oxyanion hole; other site 243164002412 catalytic triad [active] 243164002413 potential glutamine specificity residues [chemical binding]; other site 243164002414 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 243164002415 ATP Binding subdomain [chemical binding]; other site 243164002416 Ligand Binding sites [chemical binding]; other site 243164002417 Dimerization subdomain; other site 243164002418 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 243164002419 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 243164002420 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243164002421 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 243164002422 AIR carboxylase; Region: AIRC; cl00310 243164002423 adenylosuccinate lyase; Provisional; Region: PRK07492 243164002424 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 243164002425 tetramer interface [polypeptide binding]; other site 243164002426 active site 243164002427 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 243164002428 active site 243164002429 ATP binding site [chemical binding]; other site 243164002430 substrate binding site [chemical binding]; other site 243164002431 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 243164002432 putative active site pocket [active] 243164002433 4-fold oligomerization interface [polypeptide binding]; other site 243164002434 metal binding residues [ion binding]; metal-binding site 243164002435 3-fold/trimer interface [polypeptide binding]; other site 243164002436 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 243164002437 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 243164002438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164002439 homodimer interface [polypeptide binding]; other site 243164002440 catalytic residue [active] 243164002441 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 243164002442 histidinol dehydrogenase; Region: hisD; TIGR00069 243164002443 NAD binding site [chemical binding]; other site 243164002444 dimerization interface [polypeptide binding]; other site 243164002445 product binding site; other site 243164002446 substrate binding site [chemical binding]; other site 243164002447 zinc binding site [ion binding]; other site 243164002448 catalytic residues [active] 243164002449 ATP phosphoribosyltransferase; Region: HisG; cl15266 243164002450 ATP phosphoribosyltransferase; Region: HisG; cl15266 243164002451 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 243164002452 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 243164002453 dimer interface [polypeptide binding]; other site 243164002454 motif 1; other site 243164002455 active site 243164002456 motif 2; other site 243164002457 motif 3; other site 243164002458 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 243164002459 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 243164002460 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 243164002461 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 243164002462 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 243164002463 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 243164002464 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 243164002465 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 243164002466 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 243164002467 Walker A/P-loop; other site 243164002468 ATP binding site [chemical binding]; other site 243164002469 Q-loop/lid; other site 243164002470 ABC transporter signature motif; other site 243164002471 Walker B; other site 243164002472 D-loop; other site 243164002473 H-loop/switch region; other site 243164002474 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 243164002475 threonine dehydratase; Reviewed; Region: PRK09224 243164002476 FtsX-like permease family; Region: FtsX; pfam02687 243164002477 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243164002478 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243164002479 Walker A/P-loop; other site 243164002480 ATP binding site [chemical binding]; other site 243164002481 Q-loop/lid; other site 243164002482 ABC transporter signature motif; other site 243164002483 Walker B; other site 243164002484 D-loop; other site 243164002485 H-loop/switch region; other site 243164002486 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 243164002487 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 243164002488 FeS/SAM binding site; other site 243164002489 HemN C-terminal region; Region: HemN_C; pfam06969 243164002490 GTP-binding protein LepA; Provisional; Region: PRK05433 243164002491 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 243164002492 G1 box; other site 243164002493 putative GEF interaction site [polypeptide binding]; other site 243164002494 GTP/Mg2+ binding site [chemical binding]; other site 243164002495 Switch I region; other site 243164002496 G2 box; other site 243164002497 G3 box; other site 243164002498 Switch II region; other site 243164002499 G4 box; other site 243164002500 G5 box; other site 243164002501 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 243164002502 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 243164002503 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 243164002504 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 243164002505 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243164002506 NADH dehydrogenase; Region: NADHdh; cl00469 243164002507 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 243164002508 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 243164002509 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 243164002510 putative dimer interface [polypeptide binding]; other site 243164002511 [2Fe-2S] cluster binding site [ion binding]; other site 243164002512 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 243164002513 dimer interface [polypeptide binding]; other site 243164002514 [2Fe-2S] cluster binding site [ion binding]; other site 243164002515 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 243164002516 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 243164002517 SLBB domain; Region: SLBB; pfam10531 243164002518 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 243164002519 4Fe-4S binding domain; Region: Fer4; cl02805 243164002520 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243164002521 4Fe-4S binding domain; Region: Fer4; cl02805 243164002522 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 243164002523 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 243164002524 catalytic loop [active] 243164002525 iron binding site [ion binding]; other site 243164002526 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 243164002527 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 243164002528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002529 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 243164002530 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 243164002531 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 243164002532 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 243164002533 4Fe-4S binding domain; Region: Fer4; cl02805 243164002534 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 243164002535 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 243164002536 motif 1; other site 243164002537 dimer interface [polypeptide binding]; other site 243164002538 active site 243164002539 motif 2; other site 243164002540 motif 3; other site 243164002541 elongation factor P; Validated; Region: PRK00529 243164002542 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 243164002543 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 243164002544 RNA binding site [nucleotide binding]; other site 243164002545 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 243164002546 RNA binding site [nucleotide binding]; other site 243164002547 Helix-turn-helix domains; Region: HTH; cl00088 243164002548 Transport protein; Region: actII; TIGR00833 243164002549 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 243164002550 non-specific DNA binding site [nucleotide binding]; other site 243164002551 salt bridge; other site 243164002552 sequence-specific DNA binding site [nucleotide binding]; other site 243164002553 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 243164002554 reductive dehalogenase; Region: RDH; TIGR02486 243164002555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243164002556 Helix-turn-helix domains; Region: HTH; cl00088 243164002557 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 243164002558 Helix-turn-helix domains; Region: HTH; cl00088 243164002559 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243164002560 integrase; Provisional; Region: int; PHA02601 243164002561 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 243164002562 Phage integrase family; Region: Phage_integrase; pfam00589 243164002563 Int/Topo IB signature motif; other site 243164002564 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 243164002565 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 243164002566 non-specific DNA binding site [nucleotide binding]; other site 243164002567 salt bridge; other site 243164002568 sequence-specific DNA binding site [nucleotide binding]; other site 243164002569 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 243164002570 Catalytic site [active] 243164002571 CHC2 zinc finger; Region: zf-CHC2; cl15369 243164002572 hypothetical protein; Validated; Region: PRK07078 243164002573 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 243164002574 active site 243164002575 metal binding site [ion binding]; metal-binding site 243164002576 interdomain interaction site; other site 243164002577 Domain of unknown function (DUF927); Region: DUF927; cl12098 243164002578 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243164002579 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 243164002580 catalytic residues [active] 243164002581 catalytic nucleophile [active] 243164002582 Presynaptic Site I dimer interface [polypeptide binding]; other site 243164002583 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 243164002584 Synaptic Flat tetramer interface [polypeptide binding]; other site 243164002585 Synaptic Site I dimer interface [polypeptide binding]; other site 243164002586 DNA binding site [nucleotide binding] 243164002587 Predicted transcriptional regulator [Transcription]; Region: COG2944 243164002588 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 243164002589 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 243164002590 active site 243164002591 metal binding site [ion binding]; metal-binding site 243164002592 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 243164002593 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 243164002594 DNA binding site [nucleotide binding] 243164002595 Int/Topo IB signature motif; other site 243164002596 active site 243164002597 Helix-turn-helix domains; Region: HTH; cl00088 243164002598 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 243164002599 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 243164002600 transmembrane helices; other site 243164002601 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243164002602 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 243164002603 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 243164002604 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 243164002605 dinuclear metal binding motif [ion binding]; other site 243164002606 PAC2 family; Region: PAC2; cl00847 243164002607 PAC2 family; Region: PAC2; cl00847 243164002608 ATP-dependent DNA ligase; Provisional; Region: PRK01109 243164002609 ApbE family; Region: ApbE; cl00643 243164002610 NIL domain; Region: NIL; cl09633 243164002611 4Fe-4S binding domain; Region: Fer4; cl02805 243164002612 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243164002613 4Fe-4S binding domain; Region: Fer4; cl02805 243164002614 Domain of unknown function DUF39; Region: DUF39; cl14897 243164002615 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 243164002616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002618 Walker A/P-loop; other site 243164002619 Walker A motif; other site 243164002620 ATP binding site [chemical binding]; other site 243164002621 ATP binding site [chemical binding]; other site 243164002622 Walker B motif; other site 243164002623 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 243164002624 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 243164002625 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 243164002626 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 243164002627 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 243164002628 NADH dehydrogenase; Region: NADHdh; cl00469 243164002629 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 243164002630 4Fe-4S binding domain; Region: Fer4; cl02805 243164002631 4Fe-4S binding domain; Region: Fer4; cl02805 243164002632 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 243164002633 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 243164002634 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 243164002635 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 243164002636 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243164002637 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 243164002638 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243164002639 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00200 243164002640 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243164002641 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 243164002642 active site 243164002643 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 243164002644 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 243164002645 minor groove reading motif; other site 243164002646 helix-hairpin-helix signature motif; other site 243164002647 substrate binding pocket [chemical binding]; other site 243164002648 active site 243164002649 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 243164002650 cobyric acid synthase; Provisional; Region: PRK00784 243164002651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002652 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 243164002653 catalytic triad [active] 243164002654 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 243164002655 CoenzymeA binding site [chemical binding]; other site 243164002656 subunit interaction site [polypeptide binding]; other site 243164002657 PHB binding site; other site 243164002658 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 243164002659 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 243164002660 Walker A/P-loop; other site 243164002661 ATP binding site [chemical binding]; other site 243164002662 Q-loop/lid; other site 243164002663 ABC transporter signature motif; other site 243164002664 Walker B; other site 243164002665 D-loop; other site 243164002666 H-loop/switch region; other site 243164002667 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 243164002668 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 243164002669 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 243164002670 Walker A/P-loop; other site 243164002671 ATP binding site [chemical binding]; other site 243164002672 Q-loop/lid; other site 243164002673 ABC transporter signature motif; other site 243164002674 Walker B; other site 243164002675 D-loop; other site 243164002676 H-loop/switch region; other site 243164002677 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 243164002678 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 243164002679 ligand binding site [chemical binding]; other site 243164002680 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 243164002681 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 243164002682 ligand binding site [chemical binding]; other site 243164002683 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 243164002684 TM-ABC transporter signature motif; other site 243164002685 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 243164002686 TM-ABC transporter signature motif; other site 243164002687 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 243164002688 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 243164002689 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 243164002690 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 243164002691 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 243164002692 dimer interface [polypeptide binding]; other site 243164002693 PYR/PP interface [polypeptide binding]; other site 243164002694 TPP binding site [chemical binding]; other site 243164002695 substrate binding site [chemical binding]; other site 243164002696 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 243164002697 TPP-binding site; other site 243164002698 4Fe-4S binding domain; Region: Fer4; cl02805 243164002699 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 243164002700 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 243164002701 DNA polymerase II large subunit; Provisional; Region: PRK14714 243164002702 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 243164002703 trimerization site [polypeptide binding]; other site 243164002704 active site 243164002705 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 243164002706 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 243164002707 metal-binding site [ion binding] 243164002708 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 243164002709 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 243164002710 metal-binding site [ion binding] 243164002711 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 243164002712 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243164002713 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 243164002714 putative dimer interface [polypeptide binding]; other site 243164002715 Ferritin-like domain; Region: Ferritin; pfam00210 243164002716 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 243164002717 dinuclear metal binding motif [ion binding]; other site 243164002718 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 243164002719 dinuclear metal binding motif [ion binding]; other site 243164002720 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 243164002721 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 243164002722 Smr domain; Region: Smr; cl02619 243164002723 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 243164002724 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 243164002725 substrate binding site [chemical binding]; other site 243164002726 glutamase interaction surface [polypeptide binding]; other site 243164002727 Repressor of nif and glnA expression [Transcription]; Region: COG1693 243164002728 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 243164002729 Domain of unknown function DUF128; Region: DUF128; pfam01995 243164002730 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 243164002731 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 243164002732 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 243164002733 FeS/SAM binding site; other site 243164002734 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 243164002735 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 243164002736 dimer interface [polypeptide binding]; other site 243164002737 active site 243164002738 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 243164002739 DHH family; Region: DHH; pfam01368 243164002740 DHHA1 domain; Region: DHHA1; pfam02272 243164002741 Domain of unknown function (DUF205); Region: DUF205; cl00410 243164002742 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 243164002743 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 243164002744 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 243164002745 ATP binding site [chemical binding]; other site 243164002746 putative Mg++ binding site [ion binding]; other site 243164002747 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 243164002748 nucleotide binding region [chemical binding]; other site 243164002749 ATP-binding site [chemical binding]; other site 243164002750 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 243164002751 Protein of unknown function (DUF503); Region: DUF503; cl00669 243164002752 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 243164002753 16S/18S rRNA binding site [nucleotide binding]; other site 243164002754 S13e-L30e interaction site [polypeptide binding]; other site 243164002755 25S rRNA binding site [nucleotide binding]; other site 243164002756 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 243164002757 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 243164002758 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 243164002759 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 243164002760 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 243164002761 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 243164002762 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 243164002763 putative nucleic acid binding region [nucleotide binding]; other site 243164002764 G-X-X-G motif; other site 243164002765 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 243164002766 RNA binding site [nucleotide binding]; other site 243164002767 domain interface; other site 243164002768 dihydrodipicolinate reductase; Provisional; Region: PRK00048 243164002769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002770 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 243164002771 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 243164002772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164002773 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 243164002774 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 243164002775 dihydrodipicolinate synthase; Region: dapA; TIGR00674 243164002776 dimer interface [polypeptide binding]; other site 243164002777 active site 243164002778 catalytic residue [active] 243164002779 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164002780 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164002781 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 243164002782 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 243164002783 GDP-binding site [chemical binding]; other site 243164002784 ACT binding site; other site 243164002785 IMP binding site; other site 243164002786 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 243164002787 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 243164002788 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 243164002789 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 243164002790 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 243164002791 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 243164002792 RNA binding site [nucleotide binding]; other site 243164002793 active site 243164002794 Ribosome-binding factor A; Region: RBFA; cl00542 243164002795 translation initiation factor IF-2; Region: IF-2; TIGR00487 243164002796 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 243164002797 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 243164002798 G1 box; other site 243164002799 putative GEF interaction site [polypeptide binding]; other site 243164002800 GTP/Mg2+ binding site [chemical binding]; other site 243164002801 Switch I region; other site 243164002802 G2 box; other site 243164002803 G3 box; other site 243164002804 Switch II region; other site 243164002805 G4 box; other site 243164002806 G5 box; other site 243164002807 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 243164002808 Translation-initiation factor 2; Region: IF-2; pfam11987 243164002809 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 243164002810 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 243164002811 putative RNA binding cleft [nucleotide binding]; other site 243164002812 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 243164002813 NusA N-terminal domain; Region: NusA_N; pfam08529 243164002814 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 243164002815 RNA binding site [nucleotide binding]; other site 243164002816 homodimer interface [polypeptide binding]; other site 243164002817 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 243164002818 G-X-X-G motif; other site 243164002819 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 243164002820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002821 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243164002822 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164002823 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164002824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164002825 Coenzyme A binding pocket [chemical binding]; other site 243164002826 Protein of unknown function (DUF502); Region: DUF502; cl01107 243164002827 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 243164002828 core dimer interface [polypeptide binding]; other site 243164002829 peripheral dimer interface [polypeptide binding]; other site 243164002830 L10 interface [polypeptide binding]; other site 243164002831 L11 interface [polypeptide binding]; other site 243164002832 putative EF-Tu interaction site [polypeptide binding]; other site 243164002833 putative EF-G interaction site [polypeptide binding]; other site 243164002834 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 243164002835 23S rRNA interface [nucleotide binding]; other site 243164002836 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 243164002837 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 243164002838 mRNA/rRNA interface [nucleotide binding]; other site 243164002839 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 243164002840 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 243164002841 23S rRNA interface [nucleotide binding]; other site 243164002842 L7/L12 interface [polypeptide binding]; other site 243164002843 putative thiostrepton binding site; other site 243164002844 L25 interface [polypeptide binding]; other site 243164002845 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 243164002846 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 243164002847 putative homodimer interface [polypeptide binding]; other site 243164002848 KOW motif; Region: KOW; cl00354 243164002849 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 243164002850 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 243164002851 elongation factor Tu; Reviewed; Region: PRK12735 243164002852 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 243164002853 G1 box; other site 243164002854 GEF interaction site [polypeptide binding]; other site 243164002855 GTP/Mg2+ binding site [chemical binding]; other site 243164002856 Switch I region; other site 243164002857 G2 box; other site 243164002858 G3 box; other site 243164002859 Switch II region; other site 243164002860 G4 box; other site 243164002861 G5 box; other site 243164002862 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 243164002863 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 243164002864 Antibiotic Binding Site [chemical binding]; other site 243164002865 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 243164002866 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 243164002867 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 243164002868 putative ADP-binding pocket [chemical binding]; other site 243164002869 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 243164002870 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 243164002871 dimerization interface [polypeptide binding]; other site 243164002872 putative DNA binding site [nucleotide binding]; other site 243164002873 putative Zn2+ binding site [ion binding]; other site 243164002874 Predicted permease; Region: DUF318; cl00487 243164002875 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 243164002876 DivIVA protein; Region: DivIVA; pfam05103 243164002877 hypothetical protein; Provisional; Region: PRK13795 243164002878 HPP family; Region: HPP; pfam04982 243164002879 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 243164002880 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 243164002881 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 243164002882 PAS domain S-box; Region: sensory_box; TIGR00229 243164002883 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 243164002884 PAS domain S-box; Region: sensory_box; TIGR00229 243164002885 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 243164002886 putative active site [active] 243164002887 heme pocket [chemical binding]; other site 243164002888 PAS domain S-box; Region: sensory_box; TIGR00229 243164002889 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 243164002890 PAS domain S-box; Region: sensory_box; TIGR00229 243164002891 PAS domain S-box; Region: sensory_box; TIGR00229 243164002892 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 243164002893 putative active site [active] 243164002894 heme pocket [chemical binding]; other site 243164002895 PAS domain S-box; Region: sensory_box; TIGR00229 243164002896 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 243164002897 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 243164002898 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 243164002899 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 243164002900 putative active site [active] 243164002901 heme pocket [chemical binding]; other site 243164002902 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 243164002903 dimer interface [polypeptide binding]; other site 243164002904 phosphorylation site [posttranslational modification] 243164002905 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 243164002906 ATP binding site [chemical binding]; other site 243164002907 Mg2+ binding site [ion binding]; other site 243164002908 G-X-G motif; other site 243164002909 Response regulator receiver domain; Region: Response_reg; pfam00072 243164002910 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 243164002911 active site 243164002912 phosphorylation site [posttranslational modification] 243164002913 intermolecular recognition site; other site 243164002914 dimerization interface [polypeptide binding]; other site 243164002915 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 243164002916 ribonuclease III; Reviewed; Region: rnc; PRK00102 243164002917 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 243164002918 dimerization interface [polypeptide binding]; other site 243164002919 active site 243164002920 metal binding site [ion binding]; metal-binding site 243164002921 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 243164002922 dsRNA binding site [nucleotide binding]; other site 243164002923 Acylphosphatase; Region: Acylphosphatase; cl00551 243164002924 Domain of unknown function (DUF362); Region: DUF362; pfam04015 243164002925 multifunctional aminopeptidase A; Provisional; Region: PRK00913 243164002926 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 243164002927 interface (dimer of trimers) [polypeptide binding]; other site 243164002928 Substrate-binding/catalytic site; other site 243164002929 Zn-binding sites [ion binding]; other site 243164002930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164002931 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 243164002932 active site 243164002933 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164002934 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 243164002935 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 243164002936 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 243164002937 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243164002938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164002939 catalytic residue [active] 243164002940 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 243164002941 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 243164002942 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 243164002943 protein binding site [polypeptide binding]; other site 243164002944 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 243164002945 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 243164002946 HIGH motif; other site 243164002947 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 243164002948 active site 243164002949 KMSKS motif; other site 243164002950 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 243164002951 tRNA binding surface [nucleotide binding]; other site 243164002952 anticodon binding site; other site 243164002953 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 243164002954 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 243164002955 G-X-X-G motif; other site 243164002956 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 243164002957 RxxxH motif; other site 243164002958 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 243164002959 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 243164002960 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 243164002961 Trp docking motif [polypeptide binding]; other site 243164002962 active site 243164002963 Ribonuclease P; Region: Ribonuclease_P; cl00457 243164002964 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 243164002965 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 243164002966 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 243164002967 dimer interface [polypeptide binding]; other site 243164002968 ssDNA binding site [nucleotide binding]; other site 243164002969 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243164002970 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 243164002971 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 243164002972 putative active site [active] 243164002973 heme pocket [chemical binding]; other site 243164002974 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243164002975 Zn2+ binding site [ion binding]; other site 243164002976 Mg2+ binding site [ion binding]; other site 243164002977 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 243164002978 homotrimer interaction site [polypeptide binding]; other site 243164002979 putative active site [active] 243164002980 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 243164002981 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 243164002982 nucleotide binding site [chemical binding]; other site 243164002983 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 243164002984 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 243164002985 Walker A/P-loop; other site 243164002986 ATP binding site [chemical binding]; other site 243164002987 Q-loop/lid; other site 243164002988 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 243164002989 Q-loop/lid; other site 243164002990 ABC transporter signature motif; other site 243164002991 Walker B; other site 243164002992 D-loop; other site 243164002993 H-loop/switch region; other site 243164002994 EamA-like transporter family; Region: EamA; cl01037 243164002995 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 243164002996 EamA-like transporter family; Region: EamA; cl01037 243164002997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164002998 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 243164002999 active site 243164003000 phosphorylation site [posttranslational modification] 243164003001 intermolecular recognition site; other site 243164003002 dimerization interface [polypeptide binding]; other site 243164003003 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 243164003004 DNA binding site [nucleotide binding] 243164003005 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 243164003006 dimerization interface [polypeptide binding]; other site 243164003007 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 243164003008 dimer interface [polypeptide binding]; other site 243164003009 phosphorylation site [posttranslational modification] 243164003010 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 243164003011 ATP binding site [chemical binding]; other site 243164003012 Mg2+ binding site [ion binding]; other site 243164003013 G-X-G motif; other site 243164003014 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 243164003015 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164003016 Beta-Casp domain; Region: Beta-Casp; cl12567 243164003017 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 243164003018 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164003019 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 243164003020 active site 243164003021 phosphorylation site [posttranslational modification] 243164003022 intermolecular recognition site; other site 243164003023 dimerization interface [polypeptide binding]; other site 243164003024 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 243164003025 DNA binding residues [nucleotide binding] 243164003026 dimerization interface [polypeptide binding]; other site 243164003027 PAS fold; Region: PAS_4; pfam08448 243164003028 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 243164003029 putative active site [active] 243164003030 heme pocket [chemical binding]; other site 243164003031 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 243164003032 GAF domain; Region: GAF; cl00853 243164003033 PAS domain S-box; Region: sensory_box; TIGR00229 243164003034 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 243164003035 putative active site [active] 243164003036 heme pocket [chemical binding]; other site 243164003037 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 243164003038 PAS fold; Region: PAS_4; pfam08448 243164003039 PAS fold; Region: PAS_3; pfam08447 243164003040 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 243164003041 PAS domain S-box; Region: sensory_box; TIGR00229 243164003042 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 243164003043 putative active site [active] 243164003044 heme pocket [chemical binding]; other site 243164003045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 243164003046 Histidine kinase; Region: HisKA_3; pfam07730 243164003047 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 243164003048 ATP binding site [chemical binding]; other site 243164003049 Mg2+ binding site [ion binding]; other site 243164003050 G-X-G motif; other site 243164003051 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 243164003052 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; cl12011 243164003053 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243164003054 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 243164003055 catalytic residues [active] 243164003056 catalytic nucleophile [active] 243164003057 Recombinase; Region: Recombinase; pfam07508 243164003058 Recombinase; Region: Recombinase; pfam07508 243164003059 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 243164003060 catalytic residues [active] 243164003061 catalytic nucleophile [active] 243164003062 Recombinase; Region: Recombinase; pfam07508 243164003063 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 243164003064 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 243164003065 active site 243164003066 NlpC/P60 family; Region: NLPC_P60; cl11438 243164003067 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; cl07020 243164003068 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243164003069 putative peptidoglycan binding site; other site 243164003070 Holin family; Region: Phage_holin_4; cl01989 243164003071 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 243164003072 Phage-related minor tail protein [Function unknown]; Region: COG5280 243164003073 Phage-related protein [Function unknown]; Region: COG5412 243164003074 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 243164003075 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 243164003076 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 243164003077 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 243164003078 oligomerization interface [polypeptide binding]; other site 243164003079 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 243164003080 Phage capsid family; Region: Phage_capsid; pfam05065 243164003081 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 243164003082 oligomer interface [polypeptide binding]; other site 243164003083 active site residues [active] 243164003084 Phage-related protein [Function unknown]; Region: COG4695; cl01923 243164003085 Phage portal protein; Region: Phage_portal; pfam04860 243164003086 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 243164003087 Phage Terminase; Region: Terminase_1; pfam03354 243164003088 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 243164003089 ParB-like nuclease domain; Region: ParBc; cl02129 243164003090 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; cl12011 243164003091 Phage terminase, small subunit; Region: Terminase_4; cl01525 243164003092 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 243164003093 active site 243164003094 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; cl15358 243164003095 DNA binding residues [nucleotide binding] 243164003096 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 243164003097 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 243164003098 ATP binding site [chemical binding]; other site 243164003099 putative Mg++ binding site [ion binding]; other site 243164003100 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 243164003101 Virulence-associated protein E; Region: VirE; pfam05272 243164003102 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 243164003103 active site 243164003104 DNA binding site [nucleotide binding] 243164003105 catalytic site [active] 243164003106 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 243164003107 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 243164003108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003109 Walker A/P-loop; other site 243164003110 ATP binding site [chemical binding]; other site 243164003111 chromosome segregation protein; Provisional; Region: PRK03918 243164003112 Helix-turn-helix domains; Region: HTH; cl00088 243164003113 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_c; cd10311 243164003114 putative active site [active] 243164003115 catalytic site [active] 243164003116 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 243164003117 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 243164003118 ATP binding site [chemical binding]; other site 243164003119 putative Mg++ binding site [ion binding]; other site 243164003120 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 243164003121 nucleotide binding region [chemical binding]; other site 243164003122 ATP-binding site [chemical binding]; other site 243164003123 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 243164003124 Divergent AAA domain; Region: AAA_4; pfam04326 243164003125 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 243164003126 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; cl12011 243164003127 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; cl12011 243164003128 Uncharacterized conserved protein [Function unknown]; Region: COG4127 243164003129 Restriction endonuclease [Defense mechanisms]; Region: COG3587 243164003130 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003131 Uncharacterized conserved protein [Function unknown]; Region: COG4127 243164003132 Restriction endonuclease; Region: Mrr_cat; cl00747 243164003133 Sugar fermentation stimulation protein; Region: SfsA; cl00647 243164003134 TIGR04076 family protein; Region: TIGR04076 243164003135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164003136 Coenzyme A binding pocket [chemical binding]; other site 243164003137 Maf-like protein; Region: Maf; pfam02545 243164003138 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 243164003139 active site 243164003140 dimer interface [polypeptide binding]; other site 243164003141 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 243164003142 NAD synthetase; Provisional; Region: PRK13981 243164003143 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 243164003144 multimer interface [polypeptide binding]; other site 243164003145 active site 243164003146 catalytic triad [active] 243164003147 protein interface 1 [polypeptide binding]; other site 243164003148 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 243164003149 homodimer interface [polypeptide binding]; other site 243164003150 NAD binding pocket [chemical binding]; other site 243164003151 ATP binding pocket [chemical binding]; other site 243164003152 Mg binding site [ion binding]; other site 243164003153 active-site loop [active] 243164003154 glutamine synthetase, type I; Region: GlnA; TIGR00653 243164003155 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 243164003156 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 243164003157 Nitrogen regulatory protein P-II; Region: P-II; cl00412 243164003158 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 243164003159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164003160 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 243164003161 DNA binding site [nucleotide binding] 243164003162 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 243164003163 putative subunit interface; other site 243164003164 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243164003165 4Fe-4S binding domain; Region: Fer4; cl02805 243164003166 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 243164003167 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 243164003168 active site 243164003169 FMN binding site [chemical binding]; other site 243164003170 substrate binding site [chemical binding]; other site 243164003171 3Fe-4S cluster binding site [ion binding]; other site 243164003172 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 243164003173 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 243164003174 substrate binding site [chemical binding]; other site 243164003175 glutamase interaction surface [polypeptide binding]; other site 243164003176 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 243164003177 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 243164003178 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 243164003179 putative active site [active] 243164003180 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 243164003181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164003182 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 243164003183 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 243164003184 putative active site [active] 243164003185 oxyanion strand; other site 243164003186 catalytic triad [active] 243164003187 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 243164003188 Predicted membrane protein [Function unknown]; Region: COG1971 243164003189 Domain of unknown function DUF; Region: DUF204; pfam02659 243164003190 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243164003191 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 243164003192 dimer interface [polypeptide binding]; other site 243164003193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164003194 catalytic residue [active] 243164003195 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 243164003196 FeS/SAM binding site; other site 243164003197 CobD/Cbib protein; Region: CobD_Cbib; cl00561 243164003198 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 243164003199 Walker A motif; other site 243164003200 homodimer interface [polypeptide binding]; other site 243164003201 ATP binding site [chemical binding]; other site 243164003202 hydroxycobalamin binding site [chemical binding]; other site 243164003203 Walker B motif; other site 243164003204 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 243164003205 active site 243164003206 catalytic triad [active] 243164003207 dimer interface [polypeptide binding]; other site 243164003208 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 243164003209 DXD motif; other site 243164003210 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 243164003211 NodB motif; other site 243164003212 active site 243164003213 catalytic site [active] 243164003214 metal binding site [ion binding]; metal-binding site 243164003215 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 243164003216 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164003217 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 243164003218 active site 243164003219 phosphorylation site [posttranslational modification] 243164003220 intermolecular recognition site; other site 243164003221 dimerization interface [polypeptide binding]; other site 243164003222 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 243164003223 DNA binding residues [nucleotide binding] 243164003224 dimerization interface [polypeptide binding]; other site 243164003225 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 243164003226 metal binding site 2 [ion binding]; metal-binding site 243164003227 putative DNA binding helix; other site 243164003228 metal binding site 1 [ion binding]; metal-binding site 243164003229 dimer interface [polypeptide binding]; other site 243164003230 structural Zn2+ binding site [ion binding]; other site 243164003231 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 243164003232 Radical SAM superfamily; Region: Radical_SAM; pfam04055 243164003233 FeS/SAM binding site; other site 243164003234 putative acetyltransferase; Provisional; Region: PRK03624 243164003235 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164003236 Coenzyme A binding pocket [chemical binding]; other site 243164003237 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 243164003238 dimer interface [polypeptide binding]; other site 243164003239 [2Fe-2S] cluster binding site [ion binding]; other site 243164003240 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; cl00252 243164003241 Nitrogenase_nifN_2: 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_2; cd03466 243164003242 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 243164003243 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 243164003244 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 243164003245 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 243164003246 MoFe protein beta/alpha subunit interactions; other site 243164003247 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 243164003248 Beta subunit P cluster binding residues; other site 243164003249 MoFe protein beta subunit/Fe protein contacts; other site 243164003250 MoFe protein dimer/ dimer interactions; other site 243164003251 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 243164003252 MoFe protein alpha/beta subunit interactions; other site 243164003253 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 243164003254 Alpha subunit P cluster binding residues; other site 243164003255 FeMoco binding residues [chemical binding]; other site 243164003256 MoFe protein alpha subunit/Fe protein contacts; other site 243164003257 MoFe protein dimer/ dimer interactions; other site 243164003258 Nitrogen regulatory protein P-II; Region: P-II; cl00412 243164003259 Nitrogen regulatory protein P-II; Region: P-II; cl00412 243164003260 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 243164003261 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 243164003262 Nucleotide-binding sites [chemical binding]; other site 243164003263 Walker A motif; other site 243164003264 Switch I region of nucleotide binding site; other site 243164003265 Fe4S4 binding sites [ion binding]; other site 243164003266 Switch II region of nucleotide binding site; other site 243164003267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003268 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 243164003269 Walker A/P-loop; other site 243164003270 ATP binding site [chemical binding]; other site 243164003271 Q-loop/lid; other site 243164003272 ABC transporter signature motif; other site 243164003273 Walker B; other site 243164003274 D-loop; other site 243164003275 H-loop/switch region; other site 243164003276 TOBE domain; Region: TOBE_2; cl01440 243164003277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 243164003278 dimer interface [polypeptide binding]; other site 243164003279 conserved gate region; other site 243164003280 putative PBP binding loops; other site 243164003281 ABC-ATPase subunit interface; other site 243164003282 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 243164003283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164003284 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 243164003285 DNA binding site [nucleotide binding] 243164003286 Helix-turn-helix domains; Region: HTH; cl00088 243164003287 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 243164003288 4Fe-4S binding domain; Region: Fer4; cl02805 243164003289 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164003290 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 243164003291 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 243164003292 reductive dehalogenase; Region: RDH; TIGR02486 243164003293 4Fe-4S binding domain; Region: Fer4; cl02805 243164003294 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243164003295 Helix-turn-helix domains; Region: HTH; cl00088 243164003296 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 243164003297 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 243164003298 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 243164003299 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 243164003300 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 243164003301 putative metal binding site [ion binding]; other site 243164003302 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 243164003303 ABC-ATPase subunit interface; other site 243164003304 dimer interface [polypeptide binding]; other site 243164003305 putative PBP binding regions; other site 243164003306 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243164003307 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243164003308 Walker A/P-loop; other site 243164003309 ATP binding site [chemical binding]; other site 243164003310 Q-loop/lid; other site 243164003311 ABC transporter signature motif; other site 243164003312 Walker B; other site 243164003313 D-loop; other site 243164003314 H-loop/switch region; other site 243164003315 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243164003316 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243164003317 Helix-turn-helix domains; Region: HTH; cl00088 243164003318 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243164003319 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003320 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 243164003321 Walker A/P-loop; other site 243164003322 ATP binding site [chemical binding]; other site 243164003323 Q-loop/lid; other site 243164003324 ABC transporter signature motif; other site 243164003325 Walker B; other site 243164003326 D-loop; other site 243164003327 H-loop/switch region; other site 243164003328 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 243164003329 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243164003330 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 243164003331 Walker A/P-loop; other site 243164003332 ATP binding site [chemical binding]; other site 243164003333 Q-loop/lid; other site 243164003334 ABC transporter signature motif; other site 243164003335 Walker B; other site 243164003336 D-loop; other site 243164003337 H-loop/switch region; other site 243164003338 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 243164003339 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 243164003340 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 243164003341 homopentamer interface [polypeptide binding]; other site 243164003342 active site 243164003343 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 243164003344 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 243164003345 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 243164003346 dimerization interface [polypeptide binding]; other site 243164003347 active site 243164003348 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 243164003349 Lumazine binding domain; Region: Lum_binding; pfam00677 243164003350 Lumazine binding domain; Region: Lum_binding; pfam00677 243164003351 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 243164003352 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 243164003353 catalytic motif [active] 243164003354 Zn binding site [ion binding]; other site 243164003355 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 243164003356 Protein of unknown function (DUF541); Region: SIMPL; cl01077 243164003357 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 243164003358 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 243164003359 Catalytic site [active] 243164003360 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164003361 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 243164003362 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 243164003363 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 243164003364 ATP binding site [chemical binding]; other site 243164003365 Mg2+ binding site [ion binding]; other site 243164003366 G-X-G motif; other site 243164003367 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 243164003368 ATP binding site [chemical binding]; other site 243164003369 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 243164003370 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 243164003371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003372 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164003373 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 243164003374 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 243164003375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164003376 dihydroorotase; Validated; Region: pyrC; PRK09357 243164003377 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 243164003378 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 243164003379 active site 243164003380 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 243164003381 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 243164003382 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 243164003383 catalytic site [active] 243164003384 subunit interface [polypeptide binding]; other site 243164003385 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 243164003386 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 243164003387 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243164003388 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 243164003389 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243164003390 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 243164003391 IMP binding site; other site 243164003392 dimer interface [polypeptide binding]; other site 243164003393 interdomain contacts; other site 243164003394 partial ornithine binding site; other site 243164003395 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 243164003396 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 243164003397 FAD binding pocket [chemical binding]; other site 243164003398 FAD binding motif [chemical binding]; other site 243164003399 phosphate binding motif [ion binding]; other site 243164003400 beta-alpha-beta structure motif; other site 243164003401 NAD binding pocket [chemical binding]; other site 243164003402 Iron coordination center [ion binding]; other site 243164003403 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 243164003404 homodecamer interface [polypeptide binding]; other site 243164003405 GTP cyclohydrolase I; Provisional; Region: PLN03044 243164003406 active site 243164003407 putative catalytic site residues [active] 243164003408 zinc binding site [ion binding]; other site 243164003409 GTP-CH-I/GFRP interaction surface; other site 243164003410 threonine synthase; Reviewed; Region: PRK06721 243164003411 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 243164003412 homodimer interface [polypeptide binding]; other site 243164003413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164003414 catalytic residue [active] 243164003415 homoserine dehydrogenase; Provisional; Region: PRK06349 243164003416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164003417 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 243164003418 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 243164003419 PPIC-type PPIASE domain; Region: Rotamase; cl08278 243164003420 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 243164003421 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 243164003422 active site 243164003423 Substrate binding site; other site 243164003424 Mg++ binding site; other site 243164003425 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 243164003426 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 243164003427 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 243164003428 acetyl-CoA synthetase; Provisional; Region: PRK00174 243164003429 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 243164003430 peptide chain release factor 1; Validated; Region: prfA; PRK00591 243164003431 RF-1 domain; Region: RF-1; cl02875 243164003432 RF-1 domain; Region: RF-1; cl02875 243164003433 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 243164003434 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 243164003435 S-adenosylmethionine binding site [chemical binding]; other site 243164003436 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G_bact; cd04170 243164003437 elongation factor G; Reviewed; Region: PRK12740 243164003438 G1 box; other site 243164003439 putative GEF interaction site [polypeptide binding]; other site 243164003440 GTP/Mg2+ binding site [chemical binding]; other site 243164003441 Switch I region; other site 243164003442 G2 box; other site 243164003443 G3 box; other site 243164003444 Switch II region; other site 243164003445 G4 box; other site 243164003446 G5 box; other site 243164003447 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 243164003448 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 243164003449 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 243164003450 Integral membrane protein DUF95; Region: DUF95; cl00572 243164003451 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 243164003452 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 243164003453 Int/Topo IB signature motif; other site 243164003454 active site 243164003455 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 243164003456 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 243164003457 GIY-YIG motif/motif A; other site 243164003458 active site 243164003459 catalytic site [active] 243164003460 putative DNA binding site [nucleotide binding]; other site 243164003461 metal binding site [ion binding]; metal-binding site 243164003462 UvrB/uvrC motif; Region: UVR; pfam02151 243164003463 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 243164003464 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243164003465 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 243164003466 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 243164003467 active site 243164003468 motif I; other site 243164003469 motif II; other site 243164003470 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243164003471 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 243164003472 MutS domain I; Region: MutS_I; pfam01624 243164003473 MutS domain II; Region: MutS_II; pfam05188 243164003474 MutS family domain IV; Region: MutS_IV; pfam05190 243164003475 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 243164003476 Walker A/P-loop; other site 243164003477 ATP binding site [chemical binding]; other site 243164003478 Q-loop/lid; other site 243164003479 ABC transporter signature motif; other site 243164003480 Walker B; other site 243164003481 D-loop; other site 243164003482 H-loop/switch region; other site 243164003483 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 243164003484 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 243164003485 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 243164003486 homodimer interface [polypeptide binding]; other site 243164003487 Walker A motif; other site 243164003488 ATP binding site [chemical binding]; other site 243164003489 hydroxycobalamin binding site [chemical binding]; other site 243164003490 Walker B motif; other site 243164003491 Fructose-1,6-bisphosphatase; Region: FBPase_3; cl00862 243164003492 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 243164003493 active site 243164003494 dimerization interface [polypeptide binding]; other site 243164003495 DNA polymerase III subunit beta; Validated; Region: PRK05643 243164003496 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 243164003497 putative DNA binding surface [nucleotide binding]; other site 243164003498 dimer interface [polypeptide binding]; other site 243164003499 beta-clamp/clamp loader binding surface; other site 243164003500 beta-clamp/translesion DNA polymerase binding surface; other site 243164003501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164003502 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 243164003503 active site 243164003504 phosphorylation site [posttranslational modification] 243164003505 intermolecular recognition site; other site 243164003506 dimerization interface [polypeptide binding]; other site 243164003507 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 243164003508 DNA binding site [nucleotide binding] 243164003509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243164003510 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 243164003511 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 243164003512 dimer interface [polypeptide binding]; other site 243164003513 phosphorylation site [posttranslational modification] 243164003514 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 243164003515 ATP binding site [chemical binding]; other site 243164003516 Mg2+ binding site [ion binding]; other site 243164003517 G-X-G motif; other site 243164003518 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164003519 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 243164003520 active site 243164003521 phosphorylation site [posttranslational modification] 243164003522 intermolecular recognition site; other site 243164003523 dimerization interface [polypeptide binding]; other site 243164003524 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 243164003525 DNA binding site [nucleotide binding] 243164003526 VirE2; Region: VirE2; cl09429 243164003527 Protein of unknown function (DUF419); Region: DUF419; cl15265 243164003528 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 243164003529 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 243164003530 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 243164003531 putative active site [active] 243164003532 putative substrate binding site [chemical binding]; other site 243164003533 putative cosubstrate binding site; other site 243164003534 catalytic site [active] 243164003535 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 243164003536 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 243164003537 active site 243164003538 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 243164003539 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243164003540 TfoX N-terminal domain; Region: TfoX_N; cl01167 243164003541 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 243164003542 dimerization interface [polypeptide binding]; other site 243164003543 putative DNA binding site [nucleotide binding]; other site 243164003544 putative Zn2+ binding site [ion binding]; other site 243164003545 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 243164003546 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 243164003547 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243164003548 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 243164003549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003550 Walker A motif; other site 243164003551 ATP binding site [chemical binding]; other site 243164003552 Walker B motif; other site 243164003553 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 243164003554 heterotetramer interface [polypeptide binding]; other site 243164003555 active site pocket [active] 243164003556 cleavage site 243164003557 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 243164003558 nucleotide binding site [chemical binding]; other site 243164003559 N-acetyl-L-glutamate binding site [chemical binding]; other site 243164003560 acetylornithine aminotransferase; Provisional; Region: PRK02627 243164003561 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 243164003562 inhibitor-cofactor binding pocket; inhibition site 243164003563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164003564 catalytic residue [active] 243164003565 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 243164003566 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 243164003567 ANP binding site [chemical binding]; other site 243164003568 Substrate Binding Site II [chemical binding]; other site 243164003569 Substrate Binding Site I [chemical binding]; other site 243164003570 argininosuccinate lyase; Provisional; Region: PRK00855 243164003571 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 243164003572 active sites [active] 243164003573 tetramer interface [polypeptide binding]; other site 243164003574 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 243164003575 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 243164003576 DAK2 domain; Region: Dak2; cl03685 243164003577 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164003578 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164003579 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164003580 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 243164003581 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 243164003582 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 243164003583 generic binding surface II; other site 243164003584 ssDNA binding site; other site 243164003585 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 243164003586 ATP binding site [chemical binding]; other site 243164003587 putative Mg++ binding site [ion binding]; other site 243164003588 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 243164003589 nucleotide binding region [chemical binding]; other site 243164003590 ATP-binding site [chemical binding]; other site 243164003591 YDG/SRA domain; Region: YDG_SRA; cl02620 243164003592 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 243164003593 active site 243164003594 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 243164003595 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 243164003596 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 243164003597 active site 243164003598 HIGH motif; other site 243164003599 KMSK motif region; other site 243164003600 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243164003601 tRNA binding surface [nucleotide binding]; other site 243164003602 anticodon binding site; other site 243164003603 Helix-turn-helix domains; Region: HTH; cl00088 243164003604 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 243164003605 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 243164003606 NAD binding site [chemical binding]; other site 243164003607 homotetramer interface [polypeptide binding]; other site 243164003608 homodimer interface [polypeptide binding]; other site 243164003609 substrate binding site [chemical binding]; other site 243164003610 active site 243164003611 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 243164003612 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 243164003613 Acyl transferase domain; Region: Acyl_transf_1; cl08282 243164003614 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 243164003615 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 243164003616 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 243164003617 NAD(P) binding site [chemical binding]; other site 243164003618 homotetramer interface [polypeptide binding]; other site 243164003619 homodimer interface [polypeptide binding]; other site 243164003620 active site 243164003621 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 243164003622 putative RNA binding site [nucleotide binding]; other site 243164003623 Phosphopantetheine attachment site; Region: PP-binding; cl09936 243164003624 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 243164003625 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 243164003626 B12 binding site [chemical binding]; other site 243164003627 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 243164003628 FeS/SAM binding site; other site 243164003629 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 243164003630 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 243164003631 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 243164003632 ATP binding site [chemical binding]; other site 243164003633 putative Mg++ binding site [ion binding]; other site 243164003634 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 243164003635 nucleotide binding region [chemical binding]; other site 243164003636 ATP-binding site [chemical binding]; other site 243164003637 TRCF domain; Region: TRCF; cl04088 243164003638 gamma-glutamyl kinase; Provisional; Region: PRK05429 243164003639 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 243164003640 nucleotide binding site [chemical binding]; other site 243164003641 homotetrameric interface [polypeptide binding]; other site 243164003642 putative phosphate binding site [ion binding]; other site 243164003643 putative allosteric binding site; other site 243164003644 PUA domain; Region: PUA; cl00607 243164003645 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 243164003646 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 243164003647 protein binding site [polypeptide binding]; other site 243164003648 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 243164003649 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 243164003650 DNA binding residues [nucleotide binding] 243164003651 dimer interface [polypeptide binding]; other site 243164003652 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 243164003653 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 243164003654 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 243164003655 putative catalytic cysteine [active] 243164003656 ribonuclease PH; Reviewed; Region: rph; PRK00173 243164003657 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 243164003658 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 243164003659 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_7; cd04664 243164003660 nudix motif; other site 243164003661 Competence-damaged protein; Region: CinA; cl00666 243164003662 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 243164003663 PAS domain S-box; Region: sensory_box; TIGR00229 243164003664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 243164003665 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 243164003666 dimer interface [polypeptide binding]; other site 243164003667 phosphorylation site [posttranslational modification] 243164003668 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 243164003669 ATP binding site [chemical binding]; other site 243164003670 Mg2+ binding site [ion binding]; other site 243164003671 G-X-G motif; other site 243164003672 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243164003673 Response regulator receiver domain; Region: Response_reg; pfam00072 243164003674 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 243164003675 active site 243164003676 phosphorylation site [posttranslational modification] 243164003677 intermolecular recognition site; other site 243164003678 dimerization interface [polypeptide binding]; other site 243164003679 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 243164003680 isoform II; Region: PAF-AH_p_II; pfam03403 243164003681 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 243164003682 Probable zinc-binding domain; Region: zf-trcl; pfam13451 243164003683 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 243164003684 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 243164003685 G1 box; other site 243164003686 putative GEF interaction site [polypeptide binding]; other site 243164003687 GTP/Mg2+ binding site [chemical binding]; other site 243164003688 Switch I region; other site 243164003689 G2 box; other site 243164003690 G3 box; other site 243164003691 Switch II region; other site 243164003692 G4 box; other site 243164003693 G5 box; other site 243164003694 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 243164003695 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 243164003696 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 243164003697 metabolite-proton symporter; Region: 2A0106; TIGR00883 243164003698 putative substrate translocation pore; other site 243164003699 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 243164003700 Ligand Binding Site [chemical binding]; other site 243164003701 Transposase, Mutator family; Region: Transposase_mut; pfam00872 243164003702 MULE transposase domain; Region: MULE; pfam10551 243164003703 Fasciclin domain; Region: Fasciclin; cl02663 243164003704 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 243164003705 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 243164003706 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243164003707 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243164003708 recombination factor protein RarA; Reviewed; Region: PRK13342 243164003709 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 243164003710 Walker A motif; other site 243164003711 ATP binding site [chemical binding]; other site 243164003712 Walker B motif; other site 243164003713 arginine finger; other site 243164003714 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 243164003715 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 243164003716 putative ligand binding pocket/active site [active] 243164003717 putative metal binding site [ion binding]; other site 243164003718 AMMECR1; Region: AMMECR1; cl00911 243164003719 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 243164003720 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 243164003721 FeS/SAM binding site; other site 243164003722 EamA-like transporter family; Region: EamA; cl01037 243164003723 Protein of unknown function (DUF520); Region: DUF520; cl00723 243164003724 Predicted ATPase [General function prediction only]; Region: COG3910 243164003725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003726 Walker A/P-loop; other site 243164003727 ATP binding site [chemical binding]; other site 243164003728 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164003729 Coenzyme A binding pocket [chemical binding]; other site 243164003730 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 243164003731 CoA-binding site [chemical binding]; other site 243164003732 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 243164003733 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 243164003734 putative NAD(P) binding site [chemical binding]; other site 243164003735 active site 243164003736 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 243164003737 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 243164003738 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 243164003739 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 243164003740 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 243164003741 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 243164003742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243164003743 Coenzyme A binding pocket [chemical binding]; other site 243164003744 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 243164003745 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 243164003746 catalytic residues [active] 243164003747 Protein of unknown function (DUF2769); Region: DUF2769; pfam10967 243164003748 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 243164003749 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 243164003750 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 243164003751 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; cl11426 243164003752 Predicted membrane protein (DUF2178); Region: DUF2178; cl02016 243164003753 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 243164003754 non-specific DNA binding site [nucleotide binding]; other site 243164003755 salt bridge; other site 243164003756 sequence-specific DNA binding site [nucleotide binding]; other site 243164003757 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 243164003758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003759 Walker A/P-loop; other site 243164003760 ATP binding site [chemical binding]; other site 243164003761 Q-loop/lid; other site 243164003762 ABC transporter signature motif; other site 243164003763 Walker B; other site 243164003764 D-loop; other site 243164003765 H-loop/switch region; other site 243164003766 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164003767 Helix-turn-helix domains; Region: HTH; cl00088 243164003768 hypothetical protein; Validated; Region: PRK07682 243164003769 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 243164003770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164003771 homodimer interface [polypeptide binding]; other site 243164003772 catalytic residue [active] 243164003773 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 243164003774 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 243164003775 active site 243164003776 HIGH motif; other site 243164003777 dimer interface [polypeptide binding]; other site 243164003778 KMSKS motif; other site 243164003779 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 243164003780 LytB protein; Region: LYTB; cl00507 243164003781 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 243164003782 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 243164003783 catalytic residue [active] 243164003784 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 243164003785 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 243164003786 putative substrate binding site [chemical binding]; other site 243164003787 putative ATP binding site [chemical binding]; other site 243164003788 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 243164003789 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243164003790 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 243164003791 DNA binding residues [nucleotide binding] 243164003792 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243164003793 DNA binding residues [nucleotide binding] 243164003794 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164003795 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 243164003796 active site 243164003797 phosphorylation site [posttranslational modification] 243164003798 intermolecular recognition site; other site 243164003799 dimerization interface [polypeptide binding]; other site 243164003800 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 243164003801 DNA binding residues [nucleotide binding] 243164003802 dimerization interface [polypeptide binding]; other site 243164003803 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 243164003804 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 243164003805 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 243164003806 Walker A motif; other site 243164003807 ATP binding site [chemical binding]; other site 243164003808 Walker B motif; other site 243164003809 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 243164003810 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243164003811 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243164003812 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 243164003813 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243164003814 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 243164003815 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243164003816 PilX N-terminal; Region: PilX_N; pfam14341 243164003817 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 243164003818 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 243164003819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164003820 Walker A motif; other site 243164003821 ATP binding site [chemical binding]; other site 243164003822 Walker B motif; other site 243164003823 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 243164003824 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 243164003825 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 243164003826 bifunctional mannosyl-3-phosphoglycerate synthase/mannosyl-3 phosphoglycerate phosphatase; Provisional; Region: PRK14502 243164003827 mannosyl-3-phosphoglycerate synthase; Provisional; Region: PRK14503; cl12225 243164003828 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 243164003829 active site 243164003830 motif I; other site 243164003831 motif II; other site 243164003832 RDD family; Region: RDD; cl00746 243164003833 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 243164003834 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 243164003835 HIGH motif; other site 243164003836 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 243164003837 active site 243164003838 KMSKS motif; other site 243164003839 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 243164003840 FeS/SAM binding site; other site 243164003841 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 243164003842 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243164003843 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 243164003844 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 243164003845 heterodimer interface [polypeptide binding]; other site 243164003846 active site 243164003847 FMN binding site [chemical binding]; other site 243164003848 homodimer interface [polypeptide binding]; other site 243164003849 substrate binding site [chemical binding]; other site 243164003850 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 243164003851 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 243164003852 lipoprotein signal peptidase; Provisional; Region: PRK14787 243164003853 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 243164003854 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 243164003855 RNA binding surface [nucleotide binding]; other site 243164003856 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 243164003857 active site 243164003858 Predicted transcriptional regulator [Transcription]; Region: COG3432 243164003859 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 243164003860 GH3 auxin-responsive promoter; Region: GH3; cl04006 243164003861 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 243164003862 GAF domain; Region: GAF; cl00853 243164003863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243164003864 metal binding site [ion binding]; metal-binding site 243164003865 active site 243164003866 I-site; other site 243164003867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243164003868 Zn2+ binding site [ion binding]; other site 243164003869 Mg2+ binding site [ion binding]; other site 243164003870 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 243164003871 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 243164003872 dimerization interface [polypeptide binding]; other site 243164003873 active site 243164003874 Preprotein translocase subunit; Region: YajC; cl00806 243164003875 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14336 243164003876 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 243164003877 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 243164003878 FeS/SAM binding site; other site 243164003879 TRAM domain; Region: TRAM; cl01282 243164003880 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 243164003881 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 243164003882 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 243164003883 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 243164003884 DNA binding site [nucleotide binding] 243164003885 catalytic residue [active] 243164003886 H2TH interface [polypeptide binding]; other site 243164003887 putative catalytic residues [active] 243164003888 turnover-facilitating residue; other site 243164003889 intercalation triad [nucleotide binding]; other site 243164003890 8OG recognition residue [nucleotide binding]; other site 243164003891 putative reading head residues; other site 243164003892 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 243164003893 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 243164003894 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 243164003895 active site 243164003896 DNA polymerase I; Provisional; Region: PRK05755 243164003897 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 243164003898 active site 243164003899 metal binding site 1 [ion binding]; metal-binding site 243164003900 putative 5' ssDNA interaction site; other site 243164003901 metal binding site 3; metal-binding site 243164003902 metal binding site 2 [ion binding]; metal-binding site 243164003903 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 243164003904 putative DNA binding site [nucleotide binding]; other site 243164003905 putative metal binding site [ion binding]; other site 243164003906 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 243164003907 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 243164003908 active site 243164003909 DNA binding site [nucleotide binding] 243164003910 catalytic site [active] 243164003911 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 243164003912 active site residue [active] 243164003913 ornithine carbamoyltransferase; Provisional; Region: PRK00779 243164003914 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 243164003915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164003916 GTP-binding protein Der; Reviewed; Region: PRK00093 243164003917 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 243164003918 G1 box; other site 243164003919 GTP/Mg2+ binding site [chemical binding]; other site 243164003920 Switch I region; other site 243164003921 G2 box; other site 243164003922 Switch II region; other site 243164003923 G3 box; other site 243164003924 G4 box; other site 243164003925 G5 box; other site 243164003926 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 243164003927 G1 box; other site 243164003928 GTP/Mg2+ binding site [chemical binding]; other site 243164003929 Switch I region; other site 243164003930 G2 box; other site 243164003931 G3 box; other site 243164003932 Switch II region; other site 243164003933 G4 box; other site 243164003934 G5 box; other site 243164003935 Domain of unknown function (DUF205); Region: DUF205; cl00410 243164003936 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 243164003937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164003938 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 243164003939 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 243164003940 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 243164003941 HSP70 interaction site [polypeptide binding]; other site 243164003942 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 243164003943 substrate binding site [polypeptide binding]; other site 243164003944 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 243164003945 Zn binding sites [ion binding]; other site 243164003946 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 243164003947 dimer interface [polypeptide binding]; other site 243164003948 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 243164003949 heat shock protein GrpE; Provisional; Region: PRK14141 243164003950 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 243164003951 dimer interface [polypeptide binding]; other site 243164003952 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 243164003953 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 243164003954 HrcA protein C terminal domain; Region: HrcA; pfam01628 243164003955 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164003956 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 243164003957 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 243164003958 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 243164003959 active site 243164003960 substrate binding site [chemical binding]; other site 243164003961 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 243164003962 active site 243164003963 intersubunit interactions; other site 243164003964 catalytic residue [active] 243164003965 CTP synthetase; Validated; Region: pyrG; PRK05380 243164003966 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 243164003967 UTP binding site [chemical binding]; other site 243164003968 active site 243164003969 Catalytic site [active] 243164003970 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 243164003971 active site 243164003972 putative oxyanion hole; other site 243164003973 catalytic triad [active] 243164003974 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 243164003975 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 243164003976 HSP70 interaction site [polypeptide binding]; other site 243164003977 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 243164003978 substrate binding site [polypeptide binding]; other site 243164003979 dimer interface [polypeptide binding]; other site 243164003980 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 243164003981 DNA binding residues [nucleotide binding] 243164003982 putative dimer interface [polypeptide binding]; other site 243164003983 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 243164003984 Clp amino terminal domain; Region: Clp_N; pfam02861 243164003985 Clp amino terminal domain; Region: Clp_N; pfam02861 243164003986 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 243164003987 Walker A motif; other site 243164003988 ATP binding site [chemical binding]; other site 243164003989 Walker B motif; other site 243164003990 arginine finger; other site 243164003991 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 243164003992 Walker A motif; other site 243164003993 ATP binding site [chemical binding]; other site 243164003994 Walker B motif; other site 243164003995 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243164003996 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 243164003997 amidophosphoribosyltransferase; Region: purF; TIGR01134 243164003998 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 243164003999 active site 243164004000 tetramer interface [polypeptide binding]; other site 243164004001 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164004002 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 243164004003 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 243164004004 dimerization interface [polypeptide binding]; other site 243164004005 putative ATP binding site [chemical binding]; other site 243164004006 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 243164004007 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 243164004008 purine monophosphate binding site [chemical binding]; other site 243164004009 dimer interface [polypeptide binding]; other site 243164004010 putative catalytic residues [active] 243164004011 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 243164004012 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 243164004013 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 243164004014 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 243164004015 active site 243164004016 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 243164004017 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 243164004018 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 243164004019 S-adenosylmethionine binding site [chemical binding]; other site 243164004020 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 243164004021 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 243164004022 Ligand Binding Site [chemical binding]; other site 243164004023 B3/4 domain; Region: B3_4; cl11458 243164004024 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 243164004025 catalytic core [active] 243164004026 Peptidase family M48; Region: Peptidase_M48; cl12018 243164004027 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 243164004028 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 243164004029 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 243164004030 Domain of unknown function DUF21; Region: DUF21; pfam01595 243164004031 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 243164004032 Transporter associated domain; Region: CorC_HlyC; cl08393 243164004033 UGMP family protein; Validated; Region: PRK09604 243164004034 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 243164004035 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 243164004036 oligomerisation interface [polypeptide binding]; other site 243164004037 mobile loop; other site 243164004038 roof hairpin; other site 243164004039 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 243164004040 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 243164004041 ring oligomerisation interface [polypeptide binding]; other site 243164004042 ATP/Mg binding site [chemical binding]; other site 243164004043 stacking interactions; other site 243164004044 hinge regions; other site 243164004045 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 243164004046 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 243164004047 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243164004048 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; cl00418 243164004049 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 243164004050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164004051 Acylphosphatase; Region: Acylphosphatase; cl00551 243164004052 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 243164004053 HypF finger; Region: zf-HYPF; pfam07503 243164004054 HypF finger; Region: zf-HYPF; pfam07503 243164004055 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 243164004056 HupF/HypC family; Region: HupF_HypC; cl00394 243164004057 Hydrogenase formation hypA family; Region: HypD; cl12072 243164004058 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 243164004059 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 243164004060 dimerization interface [polypeptide binding]; other site 243164004061 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 243164004062 ATP binding site [chemical binding]; other site 243164004063 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 243164004064 Helix-turn-helix domains; Region: HTH; cl00088 243164004065 Domain of unknown function (DUF205); Region: DUF205; cl00410 243164004066 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 243164004067 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 243164004068 DNA binding residues [nucleotide binding] 243164004069 MarC family integral membrane protein; Region: MarC; cl00919 243164004070 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 243164004071 putative hydrophobic ligand binding site [chemical binding]; other site 243164004072 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 243164004073 putative active site pocket [active] 243164004074 dimerization interface [polypeptide binding]; other site 243164004075 putative catalytic residue [active] 243164004076 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 243164004077 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 243164004078 5S rRNA interface [nucleotide binding]; other site 243164004079 CTC domain interface [polypeptide binding]; other site 243164004080 L16 interface [polypeptide binding]; other site 243164004081 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 243164004082 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 243164004083 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 243164004084 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 243164004085 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 243164004086 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 243164004087 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243164004088 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 243164004089 30S subunit binding site; other site 243164004090 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 243164004091 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 243164004092 DNA binding site [nucleotide binding] 243164004093 active site 243164004094 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 243164004095 hypothetical protein; Reviewed; Region: PRK00024 243164004096 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 243164004097 helix-hairpin-helix signature motif; other site 243164004098 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 243164004099 MPN+ (JAMM) motif; other site 243164004100 Zinc-binding site [ion binding]; other site 243164004101 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 243164004102 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 243164004103 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 243164004104 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 243164004105 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 243164004106 generic binding surface II; other site 243164004107 generic binding surface I; other site 243164004108 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 243164004109 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 243164004110 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 243164004111 Uncharacterized conserved protein [Function unknown]; Region: COG3391 243164004112 NHL repeat; Region: NHL; pfam01436 243164004113 NHL repeat; Region: NHL; pfam01436 243164004114 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 243164004115 RHS Repeat; Region: RHS_repeat; cl11982 243164004116 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 243164004117 integrase; Provisional; Region: PRK09692 243164004118 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 243164004119 Phage integrase family; Region: Phage_integrase; pfam00589 243164004120 Int/Topo IB signature motif; other site 243164004121 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243164004122 Replication initiation factor; Region: Rep_trans; pfam02486 243164004123 anthranilate synthase component I; Provisional; Region: PRK13565 243164004124 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 243164004125 chorismate binding enzyme; Region: Chorismate_bind; cl10555 243164004126 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 243164004127 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 243164004128 glutamine binding [chemical binding]; other site 243164004129 catalytic triad [active] 243164004130 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 243164004131 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 243164004132 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 243164004133 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 243164004134 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 243164004135 active site 243164004136 ribulose/triose binding site [chemical binding]; other site 243164004137 phosphate binding site [ion binding]; other site 243164004138 substrate (anthranilate) binding pocket [chemical binding]; other site 243164004139 product (indole) binding pocket [chemical binding]; other site 243164004140 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 243164004141 active site 243164004142 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 243164004143 NeuB family; Region: NeuB; cl00496 243164004144 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 243164004145 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243164004146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243164004147 catalytic residue [active] 243164004148 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 243164004149 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 243164004150 substrate binding site [chemical binding]; other site 243164004151 active site 243164004152 catalytic residues [active] 243164004153 heterodimer interface [polypeptide binding]; other site 243164004154 Thymidylate synthase complementing protein; Region: Thy1; cl03630 243164004155 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 243164004156 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243164004157 Walker A/P-loop; other site 243164004158 ATP binding site [chemical binding]; other site 243164004159 Q-loop/lid; other site 243164004160 ABC transporter signature motif; other site 243164004161 Walker B; other site 243164004162 D-loop; other site 243164004163 H-loop/switch region; other site 243164004164 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243164004165 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 243164004166 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243164004167 Walker A/P-loop; other site 243164004168 ATP binding site [chemical binding]; other site 243164004169 Q-loop/lid; other site 243164004170 ABC transporter signature motif; other site 243164004171 Walker B; other site 243164004172 D-loop; other site 243164004173 H-loop/switch region; other site 243164004174 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243164004175 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 243164004176 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 243164004177 dimer interface [polypeptide binding]; other site 243164004178 conserved gate region; other site 243164004179 putative PBP binding loops; other site 243164004180 ABC-ATPase subunit interface; other site 243164004181 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 243164004182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 243164004183 dimer interface [polypeptide binding]; other site 243164004184 conserved gate region; other site 243164004185 putative PBP binding loops; other site 243164004186 ABC-ATPase subunit interface; other site 243164004187 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 243164004188 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 243164004189 L-rhamnonate dehydratase; Provisional; Region: PRK15440 243164004190 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 243164004191 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 243164004192 S-adenosylmethionine binding site [chemical binding]; other site 243164004193 Helix-turn-helix domains; Region: HTH; cl00088 243164004194 CrcB-like protein; Region: CRCB; cl09114 243164004195 Predicted transcriptional regulator [Transcription]; Region: COG1497 243164004196 Helix-turn-helix domains; Region: HTH; cl00088 243164004197 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 243164004198 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243164004199 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 243164004200 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243164004201 putative substrate translocation pore; other site 243164004202 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 243164004203 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 243164004204 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 243164004205 G1 box; other site 243164004206 GTP/Mg2+ binding site [chemical binding]; other site 243164004207 Switch I region; other site 243164004208 G2 box; other site 243164004209 G3 box; other site 243164004210 Switch II region; other site 243164004211 G4 box; other site 243164004212 G5 box; other site 243164004213 Nucleoside recognition; Region: Gate; cl00486 243164004214 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 243164004215 Nucleoside recognition; Region: Gate; cl00486 243164004216 FeoA domain; Region: FeoA; cl00838 243164004217 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 243164004218 metal binding site 2 [ion binding]; metal-binding site 243164004219 putative DNA binding helix; other site 243164004220 metal binding site 1 [ion binding]; metal-binding site 243164004221 dimer interface [polypeptide binding]; other site 243164004222 structural Zn2+ binding site [ion binding]; other site 243164004223 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 243164004224 SmpB-tmRNA interface; other site 243164004225 Helix-turn-helix domains; Region: HTH; cl00088 243164004226 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 243164004227 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 243164004228 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 243164004229 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 243164004230 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 243164004231 Walker A motif; other site 243164004232 ATP binding site [chemical binding]; other site 243164004233 Walker B motif; other site 243164004234 arginine finger; other site 243164004235 Predicted transcriptional regulator [Transcription]; Region: COG2378 243164004236 Helix-turn-helix domains; Region: HTH; cl00088 243164004237 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 243164004238 putative DNA binding site [nucleotide binding]; other site 243164004239 dimerization interface [polypeptide binding]; other site 243164004240 putative Zn2+ binding site [ion binding]; other site 243164004241 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 243164004242 active site 243164004243 NTP binding site [chemical binding]; other site 243164004244 metal binding triad [ion binding]; metal-binding site 243164004245 antibiotic binding site [chemical binding]; other site 243164004246 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 243164004247 reductive dehalogenase; Region: RDH; TIGR02486 243164004248 4Fe-4S binding domain; Region: Fer4; cl02805 243164004249 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243164004250 Helix-turn-helix domains; Region: HTH; cl00088 243164004251 reductive dehalogenase; Region: RDH; TIGR02486 243164004252 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164004253 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 243164004254 active site 243164004255 phosphorylation site [posttranslational modification] 243164004256 intermolecular recognition site; other site 243164004257 dimerization interface [polypeptide binding]; other site 243164004258 Helix-turn-helix domains; Region: HTH; cl00088 243164004259 DNA binding site [nucleotide binding] 243164004260 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164004261 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 243164004262 active site 243164004263 phosphorylation site [posttranslational modification] 243164004264 intermolecular recognition site; other site 243164004265 dimerization interface [polypeptide binding]; other site 243164004266 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 243164004267 DNA binding site [nucleotide binding] 243164004268 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243164004269 Helix-turn-helix domains; Region: HTH; cl00088 243164004270 reductive dehalogenase; Region: RDH; TIGR02486 243164004271 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 243164004272 PAS fold; Region: PAS_4; pfam08448 243164004273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 243164004274 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 243164004275 ATP binding site [chemical binding]; other site 243164004276 Mg2+ binding site [ion binding]; other site 243164004277 G-X-G motif; other site 243164004278 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164004279 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 243164004280 active site 243164004281 phosphorylation site [posttranslational modification] 243164004282 intermolecular recognition site; other site 243164004283 dimerization interface [polypeptide binding]; other site 243164004284 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 243164004285 DNA binding residues [nucleotide binding] 243164004286 dimerization interface [polypeptide binding]; other site 243164004287 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 243164004288 reductive dehalogenase; Region: RDH; TIGR02486 243164004289 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243164004290 Helix-turn-helix domains; Region: HTH; cl00088 243164004291 reductive dehalogenase; Region: RDH; TIGR02486 243164004292 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 243164004293 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 243164004294 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 243164004295 putative active site [active] 243164004296 heme pocket [chemical binding]; other site 243164004297 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 243164004298 dimer interface [polypeptide binding]; other site 243164004299 phosphorylation site [posttranslational modification] 243164004300 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 243164004301 ATP binding site [chemical binding]; other site 243164004302 Mg2+ binding site [ion binding]; other site 243164004303 G-X-G motif; other site 243164004304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243164004305 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 243164004306 active site 243164004307 phosphorylation site [posttranslational modification] 243164004308 intermolecular recognition site; other site 243164004309 dimerization interface [polypeptide binding]; other site 243164004310 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 243164004311 DNA binding site [nucleotide binding] 243164004312 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 243164004313 reductive dehalogenase; Region: RDH; TIGR02486 243164004314 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 243164004315 Prephenate dehydratase; Region: PDT; pfam00800 243164004316 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 243164004317 putative L-Phe binding site [chemical binding]; other site 243164004318 Uncharacterized conserved protein [Function unknown]; Region: COG1912 243164004319 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 243164004320 Preprotein translocase SecG subunit; Region: SecG; cl09123 243164004321 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 243164004322 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 243164004323 GatB domain; Region: GatB_Yqey; cl11497 243164004324 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 243164004325 catalytic residues [active] 243164004326 catalytic nucleophile [active] 243164004327 Recombinase; Region: Recombinase; pfam07508 243164004328 Autophagy protein Apg6; Region: APG6; pfam04111 243164004329 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 243164004330 non-specific DNA binding site [nucleotide binding]; other site 243164004331 salt bridge; other site 243164004332 sequence-specific DNA binding site [nucleotide binding]; other site 243164004333 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 243164004334 reductive dehalogenase; Region: RDH; TIGR02486 243164004335 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 243164004336 PAS fold; Region: PAS_4; pfam08448 243164004337 putative active site [active] 243164004338 heme pocket [chemical binding]; other site 243164004339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 243164004340 Histidine kinase; Region: HisKA_3; pfam07730 243164004341 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 243164004342 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243164004343 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 243164004344 active site 243164004345 phosphorylation site [posttranslational modification] 243164004346 intermolecular recognition site; other site 243164004347 dimerization interface [polypeptide binding]; other site 243164004348 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 243164004349 DNA binding residues [nucleotide binding] 243164004350 dimerization interface [polypeptide binding]; other site 243164004351 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 243164004352 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243164004353 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg5; cd04780 243164004354 DNA binding residues [nucleotide binding] 243164004355 putative dimer interface [polypeptide binding]; other site 243164004356 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 243164004357 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 243164004358 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 243164004359 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 243164004360 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243164004361 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 243164004362 NADH dehydrogenase; Region: NADHdh; cl00469 243164004363 hydrogenase membrane subunit; Validated; Region: PRK08667 243164004364 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243164004365 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 243164004366 substrate binding site [chemical binding]; other site 243164004367 Mechanosensitive ion channel; Region: MS_channel; pfam00924 243164004368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243164004369 Helix-turn-helix domains; Region: HTH; cl00088 243164004370 peroxiredoxin; Provisional; Region: PRK13189 243164004371 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 243164004372 dimer interface [polypeptide binding]; other site 243164004373 decamer (pentamer of dimers) interface [polypeptide binding]; other site 243164004374 catalytic triad [active] 243164004375 Helix-turn-helix domains; Region: HTH; cl00088 243164004376 putative DNA binding site [nucleotide binding]; other site 243164004377 putative Zn2+ binding site [ion binding]; other site 243164004378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 243164004379 LemA family; Region: LemA; cl00742 243164004380 Peptidase family M48; Region: Peptidase_M48; cl12018 243164004381 DNA polymerase II large subunit; Provisional; Region: PRK14715 243164004382 serine O-acetyltransferase; Region: cysE; TIGR01172 243164004383 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 243164004384 trimer interface [polypeptide binding]; other site 243164004385 active site 243164004386 substrate binding site [chemical binding]; other site 243164004387 CoA binding site [chemical binding]; other site 243164004388 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 243164004389 Quinolinate synthetase A protein; Region: NadA; cl00420 243164004390 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 243164004391 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 243164004392 S-adenosylmethionine binding site [chemical binding]; other site 243164004393 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 243164004394 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 243164004395 dimerization interface [polypeptide binding]; other site 243164004396 putative ATP binding site [chemical binding]; other site 243164004397 ApbE family; Region: ApbE; cl00643 243164004398 FMN-binding domain; Region: FMN_bind; cl01081 243164004399 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 243164004400 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164004401 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164004402 FMN-binding domain; Region: FMN_bind; cl01081 243164004403 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 243164004404 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164004405 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243164004406 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 243164004407 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 243164004408 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 243164004409 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 243164004410 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 243164004411 dihydropteroate synthase; Region: DHPS; TIGR01496 243164004412 substrate binding pocket [chemical binding]; other site 243164004413 dimer interface [polypeptide binding]; other site 243164004414 inhibitor binding site; inhibition site 243164004415 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 243164004416 catalytic center binding site [active] 243164004417 ATP binding site [chemical binding]; other site 243164004418 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 243164004419 active site 243164004420 recombinase A; Provisional; Region: recA; PRK09354 243164004421 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 243164004422 hexamer interface [polypeptide binding]; other site 243164004423 Walker A motif; other site 243164004424 ATP binding site [chemical binding]; other site 243164004425 Walker B motif; other site 243164004426 RecX family; Region: RecX; cl00936 243164004427 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 243164004428 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 243164004429 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243164004430 Zn2+ binding site [ion binding]; other site 243164004431 Mg2+ binding site [ion binding]; other site 243164004432 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 243164004433 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 243164004434 putative active site [active] 243164004435 metal binding site [ion binding]; metal-binding site 243164004436 homodimer binding site [polypeptide binding]; other site 243164004437 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 243164004438 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 243164004439 Domain of unknown function (DUF205); Region: DUF205; cl00410 243164004440 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 243164004441 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 243164004442 minor groove reading motif; other site 243164004443 helix-hairpin-helix signature motif; other site 243164004444 substrate binding pocket [chemical binding]; other site 243164004445 active site 243164004446 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 243164004447 homodimer interaction site [polypeptide binding]; other site 243164004448 cofactor binding site; other site 243164004449 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 243164004450 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 243164004451 active site 243164004452 catalytic residues [active] 243164004453 metal binding site [ion binding]; metal-binding site 243164004454 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 243164004455 nucleotide binding site/active site [active] 243164004456 HIT family signature motif; other site 243164004457 catalytic residue [active] 243164004458 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 243164004459 Domain of unknown function (DUF74); Region: DUF74; cl00426 243164004460 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 243164004461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243164004462 Walker A/P-loop; other site 243164004463 ATP binding site [chemical binding]; other site 243164004464 Q-loop/lid; other site 243164004465 ABC transporter signature motif; other site 243164004466 Walker B; other site 243164004467 D-loop; other site 243164004468 H-loop/switch region; other site 243164004469 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243164004470 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 243164004471 Domain of unknown function (DUF296); Region: DUF296; cl00720 243164004472 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 243164004473 non-heme iron binding site [ion binding]; other site 243164004474 dimer interface [polypeptide binding]; other site 243164004475 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 243164004476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164004477 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 243164004478 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 243164004479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243164004480 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243164004481 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 243164004482 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 243164004483 FeS/SAM binding site; other site 243164004484 DNA gyrase subunit A; Validated; Region: PRK05560 243164004485 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 243164004486 CAP-like domain; other site 243164004487 active site 243164004488 primary dimer interface [polypeptide binding]; other site 243164004489 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243164004490 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243164004491 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243164004492 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243164004493 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243164004494 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243164004495 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 243164004496 binding surface 243164004497 TPR motif; other site 243164004498 NifU-like domain; Region: NifU; cl00484 243164004499 aspartate kinase; Reviewed; Region: PRK06635 243164004500 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 243164004501 putative catalytic residues [active] 243164004502 putative nucleotide binding site [chemical binding]; other site 243164004503 putative aspartate binding site [chemical binding]; other site 243164004504 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 243164004505 putative allosteric regulatory site; other site 243164004506 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 243164004507 putative allosteric regulatory residue; other site 243164004508 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 243164004509 Sulfatase; Region: Sulfatase; cl10460 243164004510 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 243164004511 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 243164004512 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 243164004513 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 243164004514 LexA repressor; Validated; Region: PRK00215 243164004515 Helix-turn-helix domains; Region: HTH; cl00088 243164004516 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 243164004517 Catalytic site [active] 243164004518 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 243164004519 intersubunit interface [polypeptide binding]; other site 243164004520 active site 243164004521 Zn2+ binding site [ion binding]; other site 243164004522 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 243164004523 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 243164004524 putative active site [active] 243164004525 substrate binding site [chemical binding]; other site 243164004526 putative cosubstrate binding site; other site 243164004527 catalytic site [active] 243164004528 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 243164004529 substrate binding site [chemical binding]; other site