-- dump date 20140619_060110 -- class Genbank::misc_feature -- table misc_feature_note -- id note 311424000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 311424000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 311424000003 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 311424000004 Walker A motif; other site 311424000005 ATP binding site [chemical binding]; other site 311424000006 arginine finger; other site 311424000007 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 311424000008 DnaA box-binding interface [nucleotide binding]; other site 311424000009 GTPase CgtA; Reviewed; Region: obgE; PRK12297 311424000010 GTP1/OBG; Region: GTP1_OBG; pfam01018 311424000011 Obg GTPase; Region: Obg; cd01898 311424000012 G1 box; other site 311424000013 GTP/Mg2+ binding site [chemical binding]; other site 311424000014 Switch I region; other site 311424000015 G2 box; other site 311424000016 G3 box; other site 311424000017 Switch II region; other site 311424000018 G4 box; other site 311424000019 G5 box; other site 311424000020 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 311424000021 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 311424000022 active site 311424000023 (T/H)XGH motif; other site 311424000024 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 311424000025 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 311424000026 ATP binding site [chemical binding]; other site 311424000027 Mg2+ binding site [ion binding]; other site 311424000028 G-X-G motif; other site 311424000029 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 311424000030 anchoring element; other site 311424000031 dimer interface [polypeptide binding]; other site 311424000032 ATP binding site [chemical binding]; other site 311424000033 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 311424000034 active site 311424000035 putative metal-binding site [ion binding]; other site 311424000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 311424000037 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 311424000038 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424000039 Zn2+ binding site [ion binding]; other site 311424000040 Mg2+ binding site [ion binding]; other site 311424000041 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 311424000042 synthetase active site [active] 311424000043 NTP binding site [chemical binding]; other site 311424000044 metal binding site [ion binding]; metal-binding site 311424000045 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 311424000046 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 311424000047 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 311424000048 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 311424000049 dimer interface [polypeptide binding]; other site 311424000050 motif 1; other site 311424000051 active site 311424000052 motif 2; other site 311424000053 motif 3; other site 311424000054 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 311424000055 anticodon binding site; other site 311424000056 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 311424000057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311424000058 membrane protein; Provisional; Region: PRK14416 311424000059 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 311424000060 homodimer interface [polypeptide binding]; other site 311424000061 substrate-cofactor binding pocket; other site 311424000062 catalytic residue [active] 311424000063 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 311424000064 active site 311424000065 DNA polymerase IV; Validated; Region: PRK02406 311424000066 DNA binding site [nucleotide binding] 311424000067 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 311424000068 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 311424000069 active site 311424000070 dimer interface [polypeptide binding]; other site 311424000071 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 311424000072 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 311424000073 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 311424000074 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 311424000075 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 311424000076 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 311424000077 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 311424000078 putative active site [active] 311424000079 dimerization interface [polypeptide binding]; other site 311424000080 putative tRNAtyr binding site [nucleotide binding]; other site 311424000081 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 311424000082 metal binding site 2 [ion binding]; metal-binding site 311424000083 putative DNA binding helix; other site 311424000084 metal binding site 1 [ion binding]; metal-binding site 311424000085 dimer interface [polypeptide binding]; other site 311424000086 structural Zn2+ binding site [ion binding]; other site 311424000087 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 311424000088 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 311424000089 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 311424000090 Competence protein; Region: Competence; pfam03772 311424000091 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 311424000092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 311424000093 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 311424000094 SLBB domain; Region: SLBB; pfam10531 311424000095 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 311424000096 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 311424000097 TrkA-N domain; Region: TrkA_N; pfam02254 311424000098 TrkA-C domain; Region: TrkA_C; pfam02080 311424000099 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 311424000100 TrkA-N domain; Region: TrkA_N; pfam02254 311424000101 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 311424000102 Ligand Binding Site [chemical binding]; other site 311424000103 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 311424000104 Cation transport protein; Region: TrkH; cl17365 311424000105 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 311424000106 TrkA-N domain; Region: TrkA_N; pfam02254 311424000107 TrkA-C domain; Region: TrkA_C; pfam02080 311424000108 TrkA-N domain; Region: TrkA_N; pfam02254 311424000109 TrkA-C domain; Region: TrkA_C; pfam02080 311424000110 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 311424000111 TIGR00153 family protein; Region: TIGR00153 311424000112 Phosphate transporter family; Region: PHO4; pfam01384 311424000113 Guanylate kinase; Region: Guanylate_kin; pfam00625 311424000114 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 311424000115 catalytic site [active] 311424000116 G-X2-G-X-G-K; other site 311424000117 hypothetical protein; Provisional; Region: PRK04323 311424000118 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 311424000119 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 311424000120 FAD binding pocket [chemical binding]; other site 311424000121 FAD binding motif [chemical binding]; other site 311424000122 phosphate binding motif [ion binding]; other site 311424000123 beta-alpha-beta structure motif; other site 311424000124 NAD binding pocket [chemical binding]; other site 311424000125 Iron coordination center [ion binding]; other site 311424000126 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 311424000127 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 311424000128 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311424000129 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311424000130 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311424000131 SnoaL-like domain; Region: SnoaL_3; pfam13474 311424000132 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 311424000133 S-adenosylmethionine binding site [chemical binding]; other site 311424000134 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 311424000135 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 311424000136 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 311424000137 GTP-binding protein YchF; Reviewed; Region: PRK09601 311424000138 YchF GTPase; Region: YchF; cd01900 311424000139 G1 box; other site 311424000140 GTP/Mg2+ binding site [chemical binding]; other site 311424000141 Switch I region; other site 311424000142 G2 box; other site 311424000143 Switch II region; other site 311424000144 G3 box; other site 311424000145 G4 box; other site 311424000146 G5 box; other site 311424000147 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 311424000148 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 311424000149 DNA polymerase III, delta subunit; Region: holA; TIGR01128 311424000150 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 311424000151 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311424000152 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311424000153 nucleotide binding site [chemical binding]; other site 311424000154 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311424000155 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 311424000156 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 311424000157 motif 1; other site 311424000158 active site 311424000159 motif 2; other site 311424000160 motif 3; other site 311424000161 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 311424000162 FlxA-like protein; Region: FlxA; pfam14282 311424000163 DHHA1 domain; Region: DHHA1; pfam02272 311424000164 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 311424000165 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 311424000166 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 311424000167 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 311424000168 active site 311424000169 NAD binding site [chemical binding]; other site 311424000170 metal binding site [ion binding]; metal-binding site 311424000171 Clp protease ATP binding subunit; Region: clpC; CHL00095 311424000172 Clp amino terminal domain; Region: Clp_N; pfam02861 311424000173 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 311424000174 Walker A motif; other site 311424000175 ATP binding site [chemical binding]; other site 311424000176 Walker B motif; other site 311424000177 arginine finger; other site 311424000178 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 311424000179 Walker A motif; other site 311424000180 ATP binding site [chemical binding]; other site 311424000181 Walker B motif; other site 311424000182 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 311424000183 DNA repair protein RadA; Provisional; Region: PRK11823 311424000184 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 311424000185 Walker A motif/ATP binding site; other site 311424000186 ATP binding site [chemical binding]; other site 311424000187 Walker B motif; other site 311424000188 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 311424000189 substrate binding site; other site 311424000190 dimer interface; other site 311424000191 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 311424000192 homotrimer interaction site [polypeptide binding]; other site 311424000193 zinc binding site [ion binding]; other site 311424000194 CDP-binding sites; other site 311424000195 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 311424000196 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 311424000197 active site 311424000198 HIGH motif; other site 311424000199 KMSKS motif; other site 311424000200 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 311424000201 tRNA binding surface [nucleotide binding]; other site 311424000202 anticodon binding site; other site 311424000203 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 311424000204 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 311424000205 active site 311424000206 DNA binding site [nucleotide binding] 311424000207 Int/Topo IB signature motif; other site 311424000208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311424000209 Transposase; Region: HTH_Tnp_1; pfam01527 311424000210 HTH-like domain; Region: HTH_21; pfam13276 311424000211 Integrase core domain; Region: rve; pfam00665 311424000212 Integrase core domain; Region: rve_3; pfam13683 311424000213 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311424000214 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 311424000215 non-specific DNA binding site [nucleotide binding]; other site 311424000216 salt bridge; other site 311424000217 sequence-specific DNA binding site [nucleotide binding]; other site 311424000218 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 311424000219 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 311424000220 intersubunit interface [polypeptide binding]; other site 311424000221 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 311424000222 active site 311424000223 putative homodimer interface [polypeptide binding]; other site 311424000224 SAM binding site [chemical binding]; other site 311424000225 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 311424000226 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 311424000227 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311424000228 catalytic residue [active] 311424000229 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 311424000230 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 311424000231 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 311424000232 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 311424000233 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 311424000234 active site 311424000235 dimer interface [polypeptide binding]; other site 311424000236 effector binding site; other site 311424000237 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 311424000238 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424000239 FeS/SAM binding site; other site 311424000240 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 311424000241 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 311424000242 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 311424000243 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 311424000244 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 311424000245 active site 311424000246 putative homodimer interface [polypeptide binding]; other site 311424000247 SAM binding site [chemical binding]; other site 311424000248 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 311424000249 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424000250 FeS/SAM binding site; other site 311424000251 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 311424000252 Ligand Binding Site [chemical binding]; other site 311424000253 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424000254 reductive dehalogenase; Region: RDH; TIGR02486 311424000255 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424000256 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 311424000257 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 311424000258 active site 311424000259 Trp docking motif [polypeptide binding]; other site 311424000260 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 311424000261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424000262 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 311424000263 dimer interface [polypeptide binding]; other site 311424000264 phosphorylation site [posttranslational modification] 311424000265 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 311424000266 ATP binding site [chemical binding]; other site 311424000267 Mg2+ binding site [ion binding]; other site 311424000268 G-X-G motif; other site 311424000269 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000270 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 311424000271 active site 311424000272 phosphorylation site [posttranslational modification] 311424000273 intermolecular recognition site; other site 311424000274 dimerization interface [polypeptide binding]; other site 311424000275 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 311424000276 DNA binding site [nucleotide binding] 311424000277 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000278 cheY-homologous receiver domain; Region: REC; smart00448 311424000279 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 311424000280 active site 311424000281 phosphorylation site [posttranslational modification] 311424000282 intermolecular recognition site; other site 311424000283 dimerization interface [polypeptide binding]; other site 311424000284 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 311424000285 DNA binding site [nucleotide binding] 311424000286 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424000287 reductive dehalogenase; Region: RDH; TIGR02486 311424000288 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424000289 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311424000290 Transposase; Region: HTH_Tnp_1; pfam01527 311424000291 putative transposase OrfB; Reviewed; Region: PHA02517 311424000292 HTH-like domain; Region: HTH_21; pfam13276 311424000293 Integrase core domain; Region: rve; pfam00665 311424000294 Integrase core domain; Region: rve_3; pfam13683 311424000295 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424000296 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 311424000297 active site 311424000298 phosphorylation site [posttranslational modification] 311424000299 intermolecular recognition site; other site 311424000300 dimerization interface [polypeptide binding]; other site 311424000301 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 311424000302 DNA binding residues [nucleotide binding] 311424000303 dimerization interface [polypeptide binding]; other site 311424000304 PAS domain S-box; Region: sensory_box; TIGR00229 311424000305 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 311424000306 putative active site [active] 311424000307 heme pocket [chemical binding]; other site 311424000308 Histidine kinase; Region: HisKA_3; pfam07730 311424000309 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 311424000310 ATP binding site [chemical binding]; other site 311424000311 Mg2+ binding site [ion binding]; other site 311424000312 G-X-G motif; other site 311424000313 PAS domain S-box; Region: sensory_box; TIGR00229 311424000314 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 311424000315 putative active site [active] 311424000316 heme pocket [chemical binding]; other site 311424000317 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 311424000318 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424000319 PAS domain; Region: PAS_8; pfam13188 311424000320 PAS domain S-box; Region: sensory_box; TIGR00229 311424000321 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 311424000322 putative active site [active] 311424000323 heme pocket [chemical binding]; other site 311424000324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424000325 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 311424000326 dimer interface [polypeptide binding]; other site 311424000327 phosphorylation site [posttranslational modification] 311424000328 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 311424000329 ATP binding site [chemical binding]; other site 311424000330 Mg2+ binding site [ion binding]; other site 311424000331 G-X-G motif; other site 311424000332 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000333 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 311424000334 active site 311424000335 phosphorylation site [posttranslational modification] 311424000336 intermolecular recognition site; other site 311424000337 dimerization interface [polypeptide binding]; other site 311424000338 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 311424000339 DNA binding site [nucleotide binding] 311424000340 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 311424000341 Ligand Binding Site [chemical binding]; other site 311424000342 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424000343 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424000344 reductive dehalogenase; Region: RDH; TIGR02486 311424000345 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424000346 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424000347 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424000348 reductive dehalogenase; Region: RDH; TIGR02486 311424000349 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424000350 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 311424000351 FeS/SAM binding site; other site 311424000352 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424000353 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 311424000354 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 311424000355 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 311424000356 FeS/SAM binding site; other site 311424000357 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424000358 reductive dehalogenase; Region: RDH; TIGR02486 311424000359 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424000360 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 311424000361 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 311424000362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424000363 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 311424000364 dimer interface [polypeptide binding]; other site 311424000365 phosphorylation site [posttranslational modification] 311424000366 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 311424000367 ATP binding site [chemical binding]; other site 311424000368 Mg2+ binding site [ion binding]; other site 311424000369 G-X-G motif; other site 311424000370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000371 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 311424000372 active site 311424000373 phosphorylation site [posttranslational modification] 311424000374 intermolecular recognition site; other site 311424000375 dimerization interface [polypeptide binding]; other site 311424000376 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 311424000377 DNA binding site [nucleotide binding] 311424000378 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 311424000379 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 311424000380 dinuclear metal binding motif [ion binding]; other site 311424000381 NTPase; Region: NTPase_1; cl17478 311424000382 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311424000383 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 311424000384 GTP binding site; other site 311424000385 tetrathionate reductase subunit A; Provisional; Region: PRK14991 311424000386 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 311424000387 molybdopterin cofactor binding site; other site 311424000388 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 311424000389 putative molybdopterin cofactor binding site; other site 311424000390 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 311424000391 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 311424000392 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 311424000393 Domain of unknown function DUF59; Region: DUF59; cl00941 311424000394 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 311424000395 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 311424000396 Walker A motif; other site 311424000397 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424000398 E3 Ubiquitin ligase; Region: GIDE; pfam12483 311424000399 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 311424000400 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 311424000401 putative catalytic site [active] 311424000402 putative metal binding site [ion binding]; other site 311424000403 putative phosphate binding site [ion binding]; other site 311424000404 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 311424000405 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 311424000406 putative substrate-binding site; other site 311424000407 nickel binding site [ion binding]; other site 311424000408 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 311424000409 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 311424000410 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 311424000411 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 311424000412 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 311424000413 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 311424000414 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 311424000415 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 311424000416 ABC-2 type transporter; Region: ABC2_membrane; cl17235 311424000417 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 311424000418 Acyltransferase family; Region: Acyl_transf_3; cl19154 311424000419 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 311424000420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424000421 Walker A/P-loop; other site 311424000422 ATP binding site [chemical binding]; other site 311424000423 Q-loop/lid; other site 311424000424 ABC transporter signature motif; other site 311424000425 Walker B; other site 311424000426 D-loop; other site 311424000427 H-loop/switch region; other site 311424000428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311424000429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311424000430 DJ-1 family protein; Region: not_thiJ; TIGR01383 311424000431 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 311424000432 conserved cys residue [active] 311424000433 pyruvate carboxylase subunit B; Validated; Region: PRK09282 311424000434 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 311424000435 active site 311424000436 catalytic residues [active] 311424000437 metal binding site [ion binding]; metal-binding site 311424000438 homodimer binding site [polypeptide binding]; other site 311424000439 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 311424000440 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 311424000441 carboxyltransferase (CT) interaction site; other site 311424000442 biotinylation site [posttranslational modification]; other site 311424000443 pyruvate carboxylase subunit A; Validated; Region: PRK08654 311424000444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311424000445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311424000446 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311424000447 2TM domain; Region: 2TM; pfam13239 311424000448 4Fe-4S dicluster domain; Region: Fer4_21; pfam14697 311424000449 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; cl19102 311424000450 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424000451 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; cl19102 311424000452 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 311424000453 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311424000454 4Fe-4S binding domain; Region: Fer4; pfam00037 311424000455 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 311424000456 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 311424000457 putative NAD(P) binding site [chemical binding]; other site 311424000458 catalytic Zn binding site [ion binding]; other site 311424000459 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 311424000460 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 311424000461 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 311424000462 GAF domain; Region: GAF_2; pfam13185 311424000463 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 311424000464 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424000465 putative active site [active] 311424000466 heme pocket [chemical binding]; other site 311424000467 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 311424000468 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424000469 putative active site [active] 311424000470 heme pocket [chemical binding]; other site 311424000471 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 311424000472 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424000473 putative active site [active] 311424000474 heme pocket [chemical binding]; other site 311424000475 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 311424000476 putative active site [active] 311424000477 heme pocket [chemical binding]; other site 311424000478 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 311424000479 dimer interface [polypeptide binding]; other site 311424000480 phosphorylation site [posttranslational modification] 311424000481 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 311424000482 ATP binding site [chemical binding]; other site 311424000483 Mg2+ binding site [ion binding]; other site 311424000484 G-X-G motif; other site 311424000485 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 311424000486 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311424000487 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 311424000488 catalytic triad [active] 311424000489 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 311424000490 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000491 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 311424000492 active site 311424000493 phosphorylation site [posttranslational modification] 311424000494 intermolecular recognition site; other site 311424000495 dimerization interface [polypeptide binding]; other site 311424000496 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 311424000497 active site 311424000498 phosphorylation site [posttranslational modification] 311424000499 intermolecular recognition site; other site 311424000500 dimerization interface [polypeptide binding]; other site 311424000501 Rhomboid family; Region: Rhomboid; pfam01694 311424000502 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 311424000503 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 311424000504 DNA polymerase, archaeal type II, large subunit; Region: polC; TIGR00354 311424000505 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 311424000506 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 311424000507 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000508 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 311424000509 active site 311424000510 phosphorylation site [posttranslational modification] 311424000511 intermolecular recognition site; other site 311424000512 dimerization interface [polypeptide binding]; other site 311424000513 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 311424000514 DNA binding site [nucleotide binding] 311424000515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 311424000516 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 311424000517 dimerization interface [polypeptide binding]; other site 311424000518 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 311424000519 putative active site [active] 311424000520 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 311424000521 dimer interface [polypeptide binding]; other site 311424000522 phosphorylation site [posttranslational modification] 311424000523 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 311424000524 ATP binding site [chemical binding]; other site 311424000525 Mg2+ binding site [ion binding]; other site 311424000526 G-X-G motif; other site 311424000527 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 311424000528 active site 311424000529 dimer interfaces [polypeptide binding]; other site 311424000530 catalytic residues [active] 311424000531 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 311424000532 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 311424000533 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 311424000534 dimer interface [polypeptide binding]; other site 311424000535 conserved gate region; other site 311424000536 putative PBP binding loops; other site 311424000537 ABC-ATPase subunit interface; other site 311424000538 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 311424000539 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 311424000540 dimer interface [polypeptide binding]; other site 311424000541 conserved gate region; other site 311424000542 putative PBP binding loops; other site 311424000543 ABC-ATPase subunit interface; other site 311424000544 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14249 311424000545 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 311424000546 Walker A/P-loop; other site 311424000547 ATP binding site [chemical binding]; other site 311424000548 Q-loop/lid; other site 311424000549 ABC transporter signature motif; other site 311424000550 Walker B; other site 311424000551 D-loop; other site 311424000552 H-loop/switch region; other site 311424000553 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 311424000554 PhoU domain; Region: PhoU; pfam01895 311424000555 PhoU domain; Region: PhoU; pfam01895 311424000556 Low molecular weight phosphatase family; Region: LMWPc; cd00115 311424000557 active site 311424000558 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311424000559 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311424000560 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 311424000561 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 311424000562 putative dimer interface [polypeptide binding]; other site 311424000563 [2Fe-2S] cluster binding site [ion binding]; other site 311424000564 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 311424000565 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 311424000566 SLBB domain; Region: SLBB; pfam10531 311424000567 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 311424000568 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 311424000569 catalytic loop [active] 311424000570 iron binding site [ion binding]; other site 311424000571 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 311424000572 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 311424000573 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 311424000574 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 311424000575 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; smart00902 311424000576 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 311424000577 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311424000578 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 311424000579 nucleophilic elbow; other site 311424000580 catalytic triad; other site 311424000581 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 311424000582 Protein of unknown function DUF45; Region: DUF45; pfam01863 311424000583 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311424000584 EamA-like transporter family; Region: EamA; pfam00892 311424000585 EamA-like transporter family; Region: EamA; pfam00892 311424000586 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 311424000587 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 311424000588 tetramer interface [polypeptide binding]; other site 311424000589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424000590 catalytic residue [active] 311424000591 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 311424000592 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424000593 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 311424000594 active site 311424000595 phosphorylation site [posttranslational modification] 311424000596 intermolecular recognition site; other site 311424000597 dimerization interface [polypeptide binding]; other site 311424000598 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 311424000599 DNA binding site [nucleotide binding] 311424000600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424000601 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 311424000602 dimer interface [polypeptide binding]; other site 311424000603 phosphorylation site [posttranslational modification] 311424000604 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 311424000605 ATP binding site [chemical binding]; other site 311424000606 Mg2+ binding site [ion binding]; other site 311424000607 G-X-G motif; other site 311424000608 Uncharacterized conserved protein [Function unknown]; Region: COG5134 311424000609 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 311424000610 reductive dehalogenase; Region: RDH; TIGR02486 311424000611 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424000612 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424000613 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 311424000614 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 311424000615 ATP binding site [chemical binding]; other site 311424000616 Mg++ binding site [ion binding]; other site 311424000617 motif III; other site 311424000618 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 311424000619 nucleotide binding region [chemical binding]; other site 311424000620 ATP-binding site [chemical binding]; other site 311424000621 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 311424000622 Protein involved in formate dehydrogenase formation; Region: FdhE; cl19312 311424000623 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 311424000624 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 311424000625 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 311424000626 [4Fe-4S] binding site [ion binding]; other site 311424000627 molybdopterin cofactor binding site; other site 311424000628 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 311424000629 molybdopterin cofactor binding site; other site 311424000630 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 311424000631 S-adenosylmethionine binding site [chemical binding]; other site 311424000632 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 311424000633 active site 311424000634 (T/H)XGH motif; other site 311424000635 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424000636 Colicin V production protein; Region: Colicin_V; pfam02674 311424000637 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 311424000638 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 311424000639 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 311424000640 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 311424000641 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 311424000642 active site 311424000643 HIGH motif; other site 311424000644 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 311424000645 KMSKS motif; other site 311424000646 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 311424000647 tRNA binding surface [nucleotide binding]; other site 311424000648 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 311424000649 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 311424000650 flavoprotein, HI0933 family; Region: TIGR00275 311424000651 GrpB protein; Region: GrpB; pfam04229 311424000652 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 311424000653 catalytic residues [active] 311424000654 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 311424000655 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 311424000656 Rubrerythrin [Energy production and conversion]; Region: COG1592 311424000657 iron binding site [ion binding]; other site 311424000658 Protein of unknown function (DUF1616); Region: DUF1616; pfam07760 311424000659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311424000660 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 311424000661 hypothetical protein; Validated; Region: PRK06769 311424000662 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 311424000663 active site 311424000664 motif I; other site 311424000665 motif II; other site 311424000666 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 311424000667 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 311424000668 Ligand binding site; other site 311424000669 Putative Catalytic site; other site 311424000670 DXD motif; other site 311424000671 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 311424000672 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 311424000673 active site 311424000674 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 311424000675 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 311424000676 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 311424000677 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 311424000678 active site 311424000679 catalytic tetrad [active] 311424000680 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 311424000681 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 311424000682 DNA binding residues [nucleotide binding] 311424000683 HEAT repeats; Region: HEAT_2; pfam13646 311424000684 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 311424000685 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 311424000686 FeS/SAM binding site; other site 311424000687 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 311424000688 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 311424000689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424000690 Coenzyme A binding pocket [chemical binding]; other site 311424000691 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 311424000692 reactive center loop; other site 311424000693 Haemolysin-III related; Region: HlyIII; cl03831 311424000694 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 311424000695 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311424000696 ABC transporter; Region: ABC_tran_2; pfam12848 311424000697 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311424000698 flavoprotein, HI0933 family; Region: TIGR00275 311424000699 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 311424000700 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 311424000701 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 311424000702 Double zinc ribbon; Region: DZR; pfam12773 311424000703 TM2 domain; Region: TM2; pfam05154 311424000704 Domain of unknown function DUF11; Region: DUF11; cl17728 311424000705 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311424000706 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 311424000707 catalytic residues [active] 311424000708 catalytic nucleophile [active] 311424000709 Recombinase; Region: Recombinase; pfam07508 311424000710 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 311424000711 Domain of unknown function (DUF955); Region: DUF955; pfam06114 311424000712 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311424000713 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 311424000714 non-specific DNA binding site [nucleotide binding]; other site 311424000715 salt bridge; other site 311424000716 sequence-specific DNA binding site [nucleotide binding]; other site 311424000717 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 311424000718 non-specific DNA binding site [nucleotide binding]; other site 311424000719 sequence-specific DNA binding site [nucleotide binding]; other site 311424000720 salt bridge; other site 311424000721 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 311424000722 active site 311424000723 metal binding site [ion binding]; metal-binding site 311424000724 interdomain interaction site; other site 311424000725 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 311424000726 HSP70 interaction site [polypeptide binding]; other site 311424000727 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 311424000728 Walker B motif; other site 311424000729 arginine finger; other site 311424000730 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 311424000731 DNA-binding site [nucleotide binding]; DNA binding site 311424000732 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 311424000733 Subtilase family; Region: Peptidase_S8; pfam00082 311424000734 active site 311424000735 catalytic residues [active] 311424000736 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 311424000737 active site 311424000738 DNA binding site [nucleotide binding] 311424000739 Int/Topo IB signature motif; other site 311424000740 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 311424000741 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 311424000742 Domain of unknown function (DUF955); Region: DUF955; cl01076 311424000743 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 311424000744 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 311424000745 beta-clamp/clamp loader binding surface; other site 311424000746 beta-clamp/translesion DNA polymerase binding surface; other site 311424000747 putative inner membrane peptidase; Provisional; Region: PRK11778 311424000748 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 311424000749 additional DNA contacts [nucleotide binding]; other site 311424000750 mismatch recognition site; other site 311424000751 active site 311424000752 zinc binding site [ion binding]; other site 311424000753 DNA intercalation site [nucleotide binding]; other site 311424000754 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 311424000755 Part of AAA domain; Region: AAA_19; pfam13245 311424000756 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 311424000757 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 311424000758 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 311424000759 cofactor binding site; other site 311424000760 DNA binding site [nucleotide binding] 311424000761 substrate interaction site [chemical binding]; other site 311424000762 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 311424000763 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 311424000764 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 311424000765 TIGR02687 family protein; Region: TIGR02687 311424000766 PglZ domain; Region: PglZ; pfam08665 311424000767 Methyltransferase domain; Region: Methyltransf_26; pfam13659 311424000768 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 311424000769 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 311424000770 non-specific DNA binding site [nucleotide binding]; other site 311424000771 salt bridge; other site 311424000772 sequence-specific DNA binding site [nucleotide binding]; other site 311424000773 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 311424000774 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 311424000775 active site 311424000776 nucleophile elbow; other site 311424000777 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311424000778 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311424000779 HerA helicase [Replication, recombination, and repair]; Region: COG0433 311424000780 HAS barrel domain; Region: HAS-barrel; pfam09378 311424000781 Domain of unknown function DUF87; Region: DUF87; pfam01935 311424000782 NurA nuclease; Region: NurA; smart00933 311424000783 LysE type translocator; Region: LysE; cl00565 311424000784 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 311424000785 active site 311424000786 Zn binding site [ion binding]; other site 311424000787 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 311424000788 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 311424000789 Protein export membrane protein; Region: SecD_SecF; pfam02355 311424000790 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 311424000791 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 311424000792 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 311424000793 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 311424000794 metal binding triad [ion binding]; metal-binding site 311424000795 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 311424000796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424000797 Zn2+ binding site [ion binding]; other site 311424000798 Mg2+ binding site [ion binding]; other site 311424000799 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 311424000800 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 311424000801 non-specific DNA binding site [nucleotide binding]; other site 311424000802 salt bridge; other site 311424000803 sequence-specific DNA binding site [nucleotide binding]; other site 311424000804 primosome assembly protein PriA; Validated; Region: PRK05580 311424000805 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 311424000806 ATP binding site [chemical binding]; other site 311424000807 putative Mg++ binding site [ion binding]; other site 311424000808 Trm112p-like protein; Region: Trm112p; cl01066 311424000809 helicase superfamily c-terminal domain; Region: HELICc; smart00490 311424000810 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 311424000811 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 311424000812 cell division protein MraZ; Reviewed; Region: PRK00326 311424000813 MraZ protein; Region: MraZ; pfam02381 311424000814 MraZ protein; Region: MraZ; pfam02381 311424000815 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 311424000816 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 311424000817 Cell division protein FtsA; Region: FtsA; smart00842 311424000818 Cell division protein FtsA; Region: FtsA; pfam14450 311424000819 cell division protein FtsZ; Validated; Region: PRK09330 311424000820 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 311424000821 nucleotide binding site [chemical binding]; other site 311424000822 SulA interaction site; other site 311424000823 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 311424000824 ATP cone domain; Region: ATP-cone; pfam03477 311424000825 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 311424000826 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 311424000827 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 311424000828 active site 311424000829 dimer interface [polypeptide binding]; other site 311424000830 effector binding site; other site 311424000831 TSCPD domain; Region: TSCPD; pfam12637 311424000832 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 311424000833 Uncharacterized conserved protein [Function unknown]; Region: COG1432 311424000834 LabA_like proteins; Region: LabA_like; cd06167 311424000835 putative metal binding site [ion binding]; other site 311424000836 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 311424000837 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 311424000838 FeS/SAM binding site; other site 311424000839 Yqey-like protein; Region: YqeY; pfam09424 311424000840 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 311424000841 membrane protein insertase; Provisional; Region: PRK01318 311424000842 Mor transcription activator family; Region: Mor; cl02360 311424000843 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; cl19531 311424000844 Phage capsid family; Region: Phage_capsid; cl19393 311424000845 Terminase-like family; Region: Terminase_6; pfam03237 311424000846 Uncharacterized conserved protein [Function unknown]; Region: COG5484 311424000847 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 311424000848 Putative zinc ribbon domain; Region: DUF164; pfam02591 311424000849 RNAse HI family that includes archaeal, some bacterial as well as plant RNase HI; Region: RNase_HI_like; cd09279 311424000850 C-terminal peptidase (prc); Region: prc; TIGR00225 311424000851 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 311424000852 protein binding site [polypeptide binding]; other site 311424000853 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 311424000854 Catalytic dyad [active] 311424000855 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 311424000856 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 311424000857 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 311424000858 dimer interface [polypeptide binding]; other site 311424000859 motif 1; other site 311424000860 active site 311424000861 motif 2; other site 311424000862 motif 3; other site 311424000863 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 311424000864 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 311424000865 putative tRNA-binding site [nucleotide binding]; other site 311424000866 B3/4 domain; Region: B3_4; pfam03483 311424000867 tRNA synthetase B5 domain; Region: B5; pfam03484 311424000868 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 311424000869 dimer interface [polypeptide binding]; other site 311424000870 motif 1; other site 311424000871 motif 3; other site 311424000872 motif 2; other site 311424000873 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 311424000874 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 311424000875 dimer interface [polypeptide binding]; other site 311424000876 substrate binding site [chemical binding]; other site 311424000877 metal binding sites [ion binding]; metal-binding site 311424000878 prolyl-tRNA synthetase; Provisional; Region: PRK09194 311424000879 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 311424000880 dimer interface [polypeptide binding]; other site 311424000881 motif 1; other site 311424000882 active site 311424000883 motif 2; other site 311424000884 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 311424000885 putative deacylase active site [active] 311424000886 motif 3; other site 311424000887 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 311424000888 anticodon binding site; other site 311424000889 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 311424000890 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 311424000891 RIP metalloprotease RseP; Region: TIGR00054 311424000892 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 311424000893 active site 311424000894 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 311424000895 protein binding site [polypeptide binding]; other site 311424000896 putative substrate binding region [chemical binding]; other site 311424000897 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 311424000898 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 311424000899 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 311424000900 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 311424000901 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 311424000902 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 311424000903 active site 311424000904 dimer interface [polypeptide binding]; other site 311424000905 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 311424000906 hinge region; other site 311424000907 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 311424000908 putative nucleotide binding site [chemical binding]; other site 311424000909 uridine monophosphate binding site [chemical binding]; other site 311424000910 homohexameric interface [polypeptide binding]; other site 311424000911 elongation factor Ts; Reviewed; Region: tsf; PRK12332 311424000912 UBA/TS-N domain; Region: UBA; pfam00627 311424000913 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 311424000914 rRNA interaction site [nucleotide binding]; other site 311424000915 S8 interaction site; other site 311424000916 putative laminin-1 binding site; other site 311424000917 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 311424000918 putative active site [active] 311424000919 catalytic triad [active] 311424000920 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 311424000921 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 311424000922 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 311424000923 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 311424000924 dimerization interface [polypeptide binding]; other site 311424000925 ATP binding site [chemical binding]; other site 311424000926 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 311424000927 dimerization interface [polypeptide binding]; other site 311424000928 ATP binding site [chemical binding]; other site 311424000929 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 311424000930 active site 311424000931 multimer interface [polypeptide binding]; other site 311424000932 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 311424000933 iron-sulfur cluster [ion binding]; other site 311424000934 [2Fe-2S] cluster binding site [ion binding]; other site 311424000935 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 311424000936 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 311424000937 active site 311424000938 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 311424000939 putative SAM binding site [chemical binding]; other site 311424000940 putative homodimer interface [polypeptide binding]; other site 311424000941 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 311424000942 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 311424000943 active site 311424000944 HIGH motif; other site 311424000945 KMSKS motif; other site 311424000946 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 311424000947 tRNA binding surface [nucleotide binding]; other site 311424000948 anticodon binding site; other site 311424000949 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 311424000950 substrate binding pocket [chemical binding]; other site 311424000951 chain length determination region; other site 311424000952 substrate-Mg2+ binding site; other site 311424000953 catalytic residues [active] 311424000954 aspartate-rich region 1; other site 311424000955 active site lid residues [active] 311424000956 aspartate-rich region 2; other site 311424000957 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 311424000958 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 311424000959 Walker A motif; other site 311424000960 ATP binding site [chemical binding]; other site 311424000961 Walker B motif; other site 311424000962 arginine finger; other site 311424000963 Peptidase family M41; Region: Peptidase_M41; pfam01434 311424000964 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 311424000965 Oligomerization domain; Region: Oligomerization; pfam02410 311424000966 Nucleoside diphosphate kinase; Region: NDK; pfam00334 311424000967 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 311424000968 active site 311424000969 multimer interface [polypeptide binding]; other site 311424000970 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 311424000971 Glycoprotease family; Region: Peptidase_M22; pfam00814 311424000972 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 311424000973 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 311424000974 motif II; other site 311424000975 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 311424000976 thiamine monophosphate kinase; Provisional; Region: PRK05731 311424000977 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 311424000978 ATP binding site [chemical binding]; other site 311424000979 dimerization interface [polypeptide binding]; other site 311424000980 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 311424000981 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 311424000982 S-adenosylmethionine binding site [chemical binding]; other site 311424000983 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 311424000984 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 311424000985 S-adenosylmethionine binding site [chemical binding]; other site 311424000986 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 311424000987 active site 311424000988 NAD binding site [chemical binding]; other site 311424000989 metal binding site [ion binding]; metal-binding site 311424000990 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 311424000991 putative active site [active] 311424000992 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 311424000993 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 311424000994 S-adenosylmethionine binding site [chemical binding]; other site 311424000995 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 311424000996 active site 311424000997 metal binding site [ion binding]; metal-binding site 311424000998 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 311424000999 S-adenosylmethionine binding site [chemical binding]; other site 311424001000 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 311424001001 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 311424001002 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 311424001003 Rubrerythrin [Energy production and conversion]; Region: COG1592 311424001004 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 311424001005 binuclear metal center [ion binding]; other site 311424001006 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 311424001007 iron binding site [ion binding]; other site 311424001008 Ion transport protein; Region: Ion_trans; pfam00520 311424001009 Ion channel; Region: Ion_trans_2; pfam07885 311424001010 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 311424001011 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 311424001012 active site 311424001013 NTP binding site [chemical binding]; other site 311424001014 metal binding triad [ion binding]; metal-binding site 311424001015 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 311424001016 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 311424001017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424001018 Walker A/P-loop; other site 311424001019 ATP binding site [chemical binding]; other site 311424001020 Q-loop/lid; other site 311424001021 ABC transporter signature motif; other site 311424001022 Walker B; other site 311424001023 D-loop; other site 311424001024 H-loop/switch region; other site 311424001025 ABC-2 type transporter; Region: ABC2_membrane; cl17235 311424001026 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311424001027 hypothetical protein; Provisional; Region: PRK01184 311424001028 AAA domain; Region: AAA_18; pfam13238 311424001029 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 311424001030 catalytic motif [active] 311424001031 Zn binding site [ion binding]; other site 311424001032 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 311424001033 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 311424001034 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 311424001035 trimer interface [polypeptide binding]; other site 311424001036 active site 311424001037 Probable zinc-binding domain; Region: zf-trcl; pfam13451 311424001038 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 311424001039 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311424001040 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311424001041 Walker A/P-loop; other site 311424001042 ATP binding site [chemical binding]; other site 311424001043 Q-loop/lid; other site 311424001044 ABC transporter signature motif; other site 311424001045 Walker B; other site 311424001046 D-loop; other site 311424001047 H-loop/switch region; other site 311424001048 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 311424001049 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 311424001050 dimer interface [polypeptide binding]; other site 311424001051 conserved gate region; other site 311424001052 putative PBP binding loops; other site 311424001053 ABC-ATPase subunit interface; other site 311424001054 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 311424001055 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311424001056 substrate binding pocket [chemical binding]; other site 311424001057 membrane-bound complex binding site; other site 311424001058 hinge residues; other site 311424001059 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424001060 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 311424001061 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 311424001062 oligomer interface [polypeptide binding]; other site 311424001063 metal binding site [ion binding]; metal-binding site 311424001064 metal binding site [ion binding]; metal-binding site 311424001065 putative Cl binding site [ion binding]; other site 311424001066 aspartate ring; other site 311424001067 basic sphincter; other site 311424001068 hydrophobic gate; other site 311424001069 periplasmic entrance; other site 311424001070 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 311424001071 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 311424001072 Mut7-C RNAse domain; Region: Mut7-C; pfam01927 311424001073 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 311424001074 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 311424001075 putative substrate binding site [chemical binding]; other site 311424001076 putative ATP binding site [chemical binding]; other site 311424001077 pantothenate kinase; Reviewed; Region: PRK13321 311424001078 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 311424001079 Flavoprotein; Region: Flavoprotein; cl19190 311424001080 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 311424001081 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 311424001082 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 311424001083 active site 311424001084 HIGH motif; other site 311424001085 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 311424001086 KMSKS motif; other site 311424001087 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 311424001088 tRNA binding surface [nucleotide binding]; other site 311424001089 anticodon binding site; other site 311424001090 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 311424001091 PAS domain S-box; Region: sensory_box; TIGR00229 311424001092 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 311424001093 putative active site [active] 311424001094 heme pocket [chemical binding]; other site 311424001095 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 311424001096 Histidine kinase; Region: HisKA_3; pfam07730 311424001097 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 311424001098 ATP binding site [chemical binding]; other site 311424001099 Mg2+ binding site [ion binding]; other site 311424001100 G-X-G motif; other site 311424001101 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424001102 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 311424001103 active site 311424001104 phosphorylation site [posttranslational modification] 311424001105 intermolecular recognition site; other site 311424001106 dimerization interface [polypeptide binding]; other site 311424001107 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 311424001108 DNA binding residues [nucleotide binding] 311424001109 dimerization interface [polypeptide binding]; other site 311424001110 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 311424001111 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 311424001112 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 311424001113 nucleotide binding region [chemical binding]; other site 311424001114 ATP-binding site [chemical binding]; other site 311424001115 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 311424001116 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 311424001117 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 311424001118 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424001119 active site 311424001120 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 311424001121 dimer interface [polypeptide binding]; other site 311424001122 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 311424001123 active site 311424001124 glycine-pyridoxal phosphate binding site [chemical binding]; other site 311424001125 folate binding site [chemical binding]; other site 311424001126 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 311424001127 Fe-S cluster binding site [ion binding]; other site 311424001128 active site 311424001129 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 311424001130 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 311424001131 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 311424001132 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 311424001133 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311424001134 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 311424001135 excinuclease ABC subunit B; Provisional; Region: PRK05298 311424001136 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 311424001137 ATP binding site [chemical binding]; other site 311424001138 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 311424001139 nucleotide binding region [chemical binding]; other site 311424001140 ATP-binding site [chemical binding]; other site 311424001141 Ultra-violet resistance protein B; Region: UvrB; pfam12344 311424001142 UvrB/uvrC motif; Region: UVR; pfam02151 311424001143 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14605 311424001144 RuvA N terminal domain; Region: RuvA_N; pfam01330 311424001145 H3TH domains of Flap endonuclease-1 (FEN1)-like structure specific 5' nucleases; Region: H3TH_FEN1-XPG-like; cd09897 311424001146 putative DNA binding site [nucleotide binding]; other site 311424001147 metal binding site [ion binding]; metal-binding site 311424001148 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 311424001149 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 311424001150 active site 311424001151 putative DNA-binding cleft [nucleotide binding]; other site 311424001152 dimer interface [polypeptide binding]; other site 311424001153 hypothetical protein; Validated; Region: PRK00110 311424001154 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 311424001155 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 311424001156 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 311424001157 putative dimer interface [polypeptide binding]; other site 311424001158 [2Fe-2S] cluster binding site [ion binding]; other site 311424001159 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 311424001160 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 311424001161 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 311424001162 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 311424001163 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 311424001164 substrate binding site [chemical binding]; other site 311424001165 ligand binding site [chemical binding]; other site 311424001166 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 311424001167 substrate binding site [chemical binding]; other site 311424001168 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 311424001169 malate dehydrogenase; Reviewed; Region: PRK06223 311424001170 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 311424001171 NAD(P) binding site [chemical binding]; other site 311424001172 dimer interface [polypeptide binding]; other site 311424001173 tetramer (dimer of dimers) interface [polypeptide binding]; other site 311424001174 substrate binding site [chemical binding]; other site 311424001175 fumarate hydratase; Provisional; Region: PRK06246 311424001176 Fumarase C-terminus; Region: Fumerase_C; cl00795 311424001177 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 311424001178 nucleotide binding site/active site [active] 311424001179 catalytic residue [active] 311424001180 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 311424001181 dimer interface [polypeptide binding]; other site 311424001182 ADP-ribose binding site [chemical binding]; other site 311424001183 active site 311424001184 nudix motif; other site 311424001185 metal binding site [ion binding]; metal-binding site 311424001186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424001187 Coenzyme A binding pocket [chemical binding]; other site 311424001188 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 311424001189 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 311424001190 arogenate dehydrogenase; Region: PLN02256 311424001191 Chorismate mutase type II; Region: CM_2; smart00830 311424001192 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 311424001193 Prephenate dehydratase; Region: PDT; pfam00800 311424001194 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 311424001195 putative L-Phe binding site [chemical binding]; other site 311424001196 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 311424001197 Tetramer interface [polypeptide binding]; other site 311424001198 active site 311424001199 FMN-binding site [chemical binding]; other site 311424001200 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 311424001201 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 311424001202 hinge; other site 311424001203 active site 311424001204 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 311424001205 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 311424001206 ADP binding site [chemical binding]; other site 311424001207 magnesium binding site [ion binding]; other site 311424001208 putative shikimate binding site; other site 311424001209 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 311424001210 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 311424001211 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 311424001212 shikimate binding site; other site 311424001213 NAD(P) binding site [chemical binding]; other site 311424001214 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 311424001215 active site 311424001216 catalytic residue [active] 311424001217 dimer interface [polypeptide binding]; other site 311424001218 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 311424001219 active site 311424001220 dimer interface [polypeptide binding]; other site 311424001221 metal binding site [ion binding]; metal-binding site 311424001222 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 311424001223 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 311424001224 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 311424001225 S17 interaction site [polypeptide binding]; other site 311424001226 S8 interaction site; other site 311424001227 16S rRNA interaction site [nucleotide binding]; other site 311424001228 streptomycin interaction site [chemical binding]; other site 311424001229 23S rRNA interaction site [nucleotide binding]; other site 311424001230 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 311424001231 30S ribosomal protein S7; Validated; Region: PRK05302 311424001232 elongation factor G; Reviewed; Region: PRK12739 311424001233 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 311424001234 G1 box; other site 311424001235 putative GEF interaction site [polypeptide binding]; other site 311424001236 GTP/Mg2+ binding site [chemical binding]; other site 311424001237 Switch I region; other site 311424001238 G2 box; other site 311424001239 G3 box; other site 311424001240 Switch II region; other site 311424001241 G4 box; other site 311424001242 G5 box; other site 311424001243 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 311424001244 Elongation Factor G, domain II; Region: EFG_II; pfam14492 311424001245 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 311424001246 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 311424001247 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 311424001248 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 311424001249 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 311424001250 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 311424001251 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 311424001252 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 311424001253 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 311424001254 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 311424001255 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 311424001256 putative translocon binding site; other site 311424001257 protein-rRNA interface [nucleotide binding]; other site 311424001258 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 311424001259 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 311424001260 G-X-X-G motif; other site 311424001261 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 311424001262 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 311424001263 5S rRNA interface [nucleotide binding]; other site 311424001264 23S rRNA interface [nucleotide binding]; other site 311424001265 putative antibiotic binding site [chemical binding]; other site 311424001266 L25 interface [polypeptide binding]; other site 311424001267 L27 interface [polypeptide binding]; other site 311424001268 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 311424001269 23S rRNA interface [nucleotide binding]; other site 311424001270 putative translocon interaction site; other site 311424001271 signal recognition particle (SRP54) interaction site; other site 311424001272 L23 interface [polypeptide binding]; other site 311424001273 trigger factor interaction site; other site 311424001274 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 311424001275 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 311424001276 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 311424001277 RNA binding site [nucleotide binding]; other site 311424001278 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 311424001279 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 311424001280 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 311424001281 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 311424001282 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 311424001283 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 311424001284 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 311424001285 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 311424001286 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 311424001287 5S rRNA interface [nucleotide binding]; other site 311424001288 L27 interface [polypeptide binding]; other site 311424001289 23S rRNA interface [nucleotide binding]; other site 311424001290 L5 interface [polypeptide binding]; other site 311424001291 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 311424001292 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 311424001293 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 311424001294 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 311424001295 23S rRNA binding site [nucleotide binding]; other site 311424001296 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 311424001297 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 311424001298 SecY translocase; Region: SecY; pfam00344 311424001299 adenylate kinase; Reviewed; Region: adk; PRK00279 311424001300 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 311424001301 AMP-binding site [chemical binding]; other site 311424001302 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 311424001303 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 311424001304 active site 311424001305 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 311424001306 rRNA binding site [nucleotide binding]; other site 311424001307 predicted 30S ribosome binding site; other site 311424001308 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 311424001309 30S ribosomal protein S11; Validated; Region: PRK05309 311424001310 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 311424001311 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 311424001312 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 311424001313 RNA binding surface [nucleotide binding]; other site 311424001314 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 311424001315 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 311424001316 alphaNTD - beta interaction site [polypeptide binding]; other site 311424001317 alphaNTD homodimer interface [polypeptide binding]; other site 311424001318 alphaNTD - beta' interaction site [polypeptide binding]; other site 311424001319 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 311424001320 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 311424001321 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 311424001322 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 311424001323 dimerization interface 3.5A [polypeptide binding]; other site 311424001324 active site 311424001325 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 311424001326 23S rRNA interface [nucleotide binding]; other site 311424001327 L3 interface [polypeptide binding]; other site 311424001328 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 311424001329 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 311424001330 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 311424001331 dimer interface [polypeptide binding]; other site 311424001332 active site 311424001333 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 311424001334 dimer interface [polypeptide binding]; other site 311424001335 active site 311424001336 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 311424001337 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 311424001338 active site 311424001339 substrate binding site [chemical binding]; other site 311424001340 metal binding site [ion binding]; metal-binding site 311424001341 S-adenosylmethionine synthetase; Validated; Region: PRK05250 311424001342 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 311424001343 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 311424001344 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 311424001345 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 311424001346 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 311424001347 homotetramer interface [polypeptide binding]; other site 311424001348 ligand binding site [chemical binding]; other site 311424001349 catalytic site [active] 311424001350 NAD binding site [chemical binding]; other site 311424001351 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 311424001352 Predicted kinase [General function prediction only]; Region: COG0645 311424001353 AAA domain; Region: AAA_33; pfam13671 311424001354 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 311424001355 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 311424001356 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 311424001357 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 311424001358 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 311424001359 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 311424001360 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 311424001361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424001362 Walker A/P-loop; other site 311424001363 ATP binding site [chemical binding]; other site 311424001364 Q-loop/lid; other site 311424001365 ABC transporter signature motif; other site 311424001366 Walker B; other site 311424001367 D-loop; other site 311424001368 H-loop/switch region; other site 311424001369 N-terminal half of MaoC dehydratase; Region: MaoC_dehydrat_N; pfam13452 311424001370 active site 1 [active] 311424001371 active site 2 [active] 311424001372 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 311424001373 active site 2 [active] 311424001374 active site 1 [active] 311424001375 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311424001376 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311424001377 HEAT repeats; Region: HEAT_2; pfam13646 311424001378 HEAT repeats; Region: HEAT_2; pfam13646 311424001379 Interferon-related developmental regulator (IFRD); Region: IFRD; pfam05004 311424001380 HEAT repeats; Region: HEAT_2; pfam13646 311424001381 PAC2 family; Region: PAC2; pfam09754 311424001382 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 311424001383 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 311424001384 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 311424001385 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 311424001386 active site 311424001387 substrate binding site [chemical binding]; other site 311424001388 metal binding site [ion binding]; metal-binding site 311424001389 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 311424001390 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 311424001391 active site 311424001392 Substrate binding site; other site 311424001393 Mg++ binding site; other site 311424001394 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 311424001395 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 311424001396 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 311424001397 active site 311424001398 Substrate binding site; other site 311424001399 Mg++ binding site; other site 311424001400 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 311424001401 putative trimer interface [polypeptide binding]; other site 311424001402 putative CoA binding site [chemical binding]; other site 311424001403 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 311424001404 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 311424001405 glutaminase active site [active] 311424001406 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 311424001407 dimer interface [polypeptide binding]; other site 311424001408 active site 311424001409 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 311424001410 dimer interface [polypeptide binding]; other site 311424001411 active site 311424001412 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 311424001413 substrate binding site [chemical binding]; other site 311424001414 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 311424001415 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 311424001416 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 311424001417 motif II; other site 311424001418 diaminopimelate decarboxylase; Region: lysA; TIGR01048 311424001419 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 311424001420 active site 311424001421 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311424001422 substrate binding site [chemical binding]; other site 311424001423 catalytic residues [active] 311424001424 dimer interface [polypeptide binding]; other site 311424001425 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 311424001426 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 311424001427 Walker A motif; other site 311424001428 ATP binding site [chemical binding]; other site 311424001429 Walker B motif; other site 311424001430 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 311424001431 arginine finger; other site 311424001432 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 311424001433 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 311424001434 active site 311424001435 hypothetical protein; Provisional; Region: PRK06921 311424001436 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 311424001437 Walker A motif; other site 311424001438 ATP binding site [chemical binding]; other site 311424001439 Walker B motif; other site 311424001440 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311424001441 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 311424001442 Walker A motif; other site 311424001443 ATP binding site [chemical binding]; other site 311424001444 Walker B motif; other site 311424001445 arginine finger; other site 311424001446 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 311424001447 replicative DNA helicase; Region: DnaB; TIGR00665 311424001448 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 311424001449 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 311424001450 Walker A motif; other site 311424001451 ATP binding site [chemical binding]; other site 311424001452 Walker B motif; other site 311424001453 DNA binding loops [nucleotide binding] 311424001454 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 311424001455 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 311424001456 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 311424001457 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 311424001458 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 311424001459 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311424001460 putative phosphate acyltransferase; Provisional; Region: PRK05331 311424001461 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 311424001462 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311424001463 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 311424001464 metal binding site [ion binding]; metal-binding site 311424001465 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 311424001466 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 311424001467 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 311424001468 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 311424001469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 311424001470 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311424001471 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 311424001472 non-specific DNA binding site [nucleotide binding]; other site 311424001473 salt bridge; other site 311424001474 sequence-specific DNA binding site [nucleotide binding]; other site 311424001475 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 311424001476 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 311424001477 Walker A/P-loop; other site 311424001478 ATP binding site [chemical binding]; other site 311424001479 Q-loop/lid; other site 311424001480 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 311424001481 ABC transporter signature motif; other site 311424001482 Walker B; other site 311424001483 D-loop; other site 311424001484 H-loop/switch region; other site 311424001485 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 311424001486 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 311424001487 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311424001488 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 311424001489 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 311424001490 DNA binding residues [nucleotide binding] 311424001491 DNA primase; Validated; Region: dnaG; PRK05667 311424001492 CHC2 zinc finger; Region: zf-CHC2; cl17510 311424001493 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 311424001494 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 311424001495 active site 311424001496 metal binding site [ion binding]; metal-binding site 311424001497 interdomain interaction site; other site 311424001498 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 311424001499 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 311424001500 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424001501 Zn2+ binding site [ion binding]; other site 311424001502 Mg2+ binding site [ion binding]; other site 311424001503 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 311424001504 phosphoenolpyruvate synthase; Validated; Region: PRK06464 311424001505 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 311424001506 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 311424001507 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 311424001508 Bifunctional nuclease; Region: DNase-RNase; pfam02577 311424001509 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 311424001510 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 311424001511 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 311424001512 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 311424001513 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 311424001514 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 311424001515 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 311424001516 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 311424001517 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 311424001518 beta subunit interaction interface [polypeptide binding]; other site 311424001519 Walker A motif; other site 311424001520 ATP binding site [chemical binding]; other site 311424001521 Walker B motif; other site 311424001522 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 311424001523 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 311424001524 core domain interface [polypeptide binding]; other site 311424001525 delta subunit interface [polypeptide binding]; other site 311424001526 epsilon subunit interface [polypeptide binding]; other site 311424001527 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 311424001528 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 311424001529 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 311424001530 alpha subunit interaction interface [polypeptide binding]; other site 311424001531 Walker A motif; other site 311424001532 ATP binding site [chemical binding]; other site 311424001533 Walker B motif; other site 311424001534 inhibitor binding site; inhibition site 311424001535 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 311424001536 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 311424001537 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 311424001538 gamma subunit interface [polypeptide binding]; other site 311424001539 epsilon subunit interface [polypeptide binding]; other site 311424001540 LBP interface [polypeptide binding]; other site 311424001541 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 311424001542 RimM N-terminal domain; Region: RimM; pfam01782 311424001543 PRC-barrel domain; Region: PRC; pfam05239 311424001544 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 311424001545 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 311424001546 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 311424001547 Active_site [active] 311424001548 peptide chain release factor 2; Validated; Region: prfB; PRK00578 311424001549 PCRF domain; Region: PCRF; pfam03462 311424001550 RF-1 domain; Region: RF-1; pfam00472 311424001551 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 311424001552 Zn binding site [ion binding]; other site 311424001553 hypothetical protein; Reviewed; Region: PRK00024 311424001554 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 311424001555 helix-hairpin-helix signature motif; other site 311424001556 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 311424001557 MPN+ (JAMM) motif; other site 311424001558 substrate binding pocket [chemical binding]; other site 311424001559 Zinc-binding site [ion binding]; other site 311424001560 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311424001561 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 311424001562 peptide binding site [polypeptide binding]; other site 311424001563 capreomycidine synthase; Region: viomycin_VioD; TIGR03947 311424001564 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 311424001565 homodimer interface [polypeptide binding]; other site 311424001566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424001567 catalytic residue [active] 311424001568 seryl-tRNA synthetase; Provisional; Region: PRK05431 311424001569 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 311424001570 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 311424001571 dimer interface [polypeptide binding]; other site 311424001572 active site 311424001573 motif 1; other site 311424001574 motif 2; other site 311424001575 motif 3; other site 311424001576 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 311424001577 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 311424001578 dimer interface [polypeptide binding]; other site 311424001579 putative anticodon binding site; other site 311424001580 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 311424001581 motif 1; other site 311424001582 active site 311424001583 motif 2; other site 311424001584 motif 3; other site 311424001585 Recombination protein O N terminal; Region: RecO_N; pfam11967 311424001586 DNA repair protein RecO; Region: reco; TIGR00613 311424001587 Recombination protein O C terminal; Region: RecO_C; pfam02565 311424001588 A new structural DNA glycosylase; Region: AlkD_like; cd06561 311424001589 active site 311424001590 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 311424001591 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 311424001592 oligomer interface [polypeptide binding]; other site 311424001593 metal binding site [ion binding]; metal-binding site 311424001594 metal binding site [ion binding]; metal-binding site 311424001595 Cl binding site [ion binding]; other site 311424001596 aspartate ring; other site 311424001597 basic sphincter; other site 311424001598 putative hydrophobic gate; other site 311424001599 periplasmic entrance; other site 311424001600 recombination protein RecR; Reviewed; Region: recR; PRK00076 311424001601 RecR protein; Region: RecR; pfam02132 311424001602 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 311424001603 putative active site [active] 311424001604 putative metal-binding site [ion binding]; other site 311424001605 tetramer interface [polypeptide binding]; other site 311424001606 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 311424001607 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 311424001608 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 311424001609 Walker A motif; other site 311424001610 ATP binding site [chemical binding]; other site 311424001611 Walker B motif; other site 311424001612 arginine finger; other site 311424001613 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 311424001614 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 311424001615 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 311424001616 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 311424001617 nucleotide binding site [chemical binding]; other site 311424001618 SulA interaction site; other site 311424001619 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 311424001620 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 311424001621 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 311424001622 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 311424001623 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 311424001624 enolase; Provisional; Region: eno; PRK00077 311424001625 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 311424001626 dimer interface [polypeptide binding]; other site 311424001627 metal binding site [ion binding]; metal-binding site 311424001628 substrate binding pocket [chemical binding]; other site 311424001629 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 311424001630 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 311424001631 putative active site [active] 311424001632 catalytic residue [active] 311424001633 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 311424001634 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 311424001635 nucleotide binding pocket [chemical binding]; other site 311424001636 K-X-D-G motif; other site 311424001637 catalytic site [active] 311424001638 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 311424001639 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 311424001640 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 311424001641 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 311424001642 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 311424001643 Dimer interface [polypeptide binding]; other site 311424001644 BRCT sequence motif; other site 311424001645 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 311424001646 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 311424001647 predicted active site [active] 311424001648 catalytic triad [active] 311424001649 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 311424001650 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 311424001651 ligand binding site [chemical binding]; other site 311424001652 NAD binding site [chemical binding]; other site 311424001653 dimerization interface [polypeptide binding]; other site 311424001654 catalytic site [active] 311424001655 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 311424001656 putative L-serine binding site [chemical binding]; other site 311424001657 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 311424001658 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311424001659 catalytic residue [active] 311424001660 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 311424001661 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 311424001662 active site 311424001663 HIGH motif; other site 311424001664 dimer interface [polypeptide binding]; other site 311424001665 KMSKS motif; other site 311424001666 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 311424001667 RNA binding surface [nucleotide binding]; other site 311424001668 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 311424001669 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 311424001670 active site 311424001671 Riboflavin kinase; Region: Flavokinase; pfam01687 311424001672 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 311424001673 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 311424001674 RPB12 interaction site [polypeptide binding]; other site 311424001675 RPB1 interaction site [polypeptide binding]; other site 311424001676 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 311424001677 RPB10 interaction site [polypeptide binding]; other site 311424001678 RPB11 interaction site [polypeptide binding]; other site 311424001679 RPB3 interaction site [polypeptide binding]; other site 311424001680 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 311424001681 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 311424001682 beta and beta' interface [polypeptide binding]; other site 311424001683 beta' and sigma factor interface [polypeptide binding]; other site 311424001684 Zn-binding [ion binding]; other site 311424001685 active site region [active] 311424001686 catalytic site [active] 311424001687 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 311424001688 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 311424001689 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 311424001690 G-loop; other site 311424001691 DNA binding site [nucleotide binding] 311424001692 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 311424001693 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 311424001694 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 311424001695 Walker A motif; other site 311424001696 ATP binding site [chemical binding]; other site 311424001697 Walker B motif; other site 311424001698 arginine finger; other site 311424001699 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 311424001700 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 311424001701 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 311424001702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424001703 Coenzyme A binding pocket [chemical binding]; other site 311424001704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311424001705 Predicted permease; Region: DUF318; cl17795 311424001706 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 311424001707 S-adenosylmethionine binding site [chemical binding]; other site 311424001708 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 311424001709 FeS/SAM binding site; other site 311424001710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311424001711 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 311424001712 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 311424001713 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 311424001714 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 311424001715 nickel binding site [ion binding]; other site 311424001716 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 311424001717 catalytic residues [active] 311424001718 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 311424001719 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 311424001720 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A; cl18976 311424001721 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 311424001722 FeS/SAM binding site; other site 311424001723 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424001724 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 311424001725 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 311424001726 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 311424001727 active site 311424001728 dimer interface [polypeptide binding]; other site 311424001729 effector binding site; other site 311424001730 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 311424001731 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 311424001732 active site 311424001733 phosphorylation site [posttranslational modification] 311424001734 intermolecular recognition site; other site 311424001735 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 311424001736 dimerization interface [polypeptide binding]; other site 311424001737 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424001738 Zn2+ binding site [ion binding]; other site 311424001739 Mg2+ binding site [ion binding]; other site 311424001740 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424001741 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 311424001742 putative active site [active] 311424001743 heme pocket [chemical binding]; other site 311424001744 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 311424001745 putative active site [active] 311424001746 heme pocket [chemical binding]; other site 311424001747 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 311424001748 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424001749 putative active site [active] 311424001750 heme pocket [chemical binding]; other site 311424001751 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 311424001752 putative active site [active] 311424001753 heme pocket [chemical binding]; other site 311424001754 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 311424001755 dimer interface [polypeptide binding]; other site 311424001756 phosphorylation site [posttranslational modification] 311424001757 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 311424001758 ATP binding site [chemical binding]; other site 311424001759 Mg2+ binding site [ion binding]; other site 311424001760 G-X-G motif; other site 311424001761 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 311424001762 SusE outer membrane protein; Region: SusE; pfam14292 311424001763 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 311424001764 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 311424001765 FeS/SAM binding site; other site 311424001766 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 311424001767 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 311424001768 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 311424001769 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311424001770 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 311424001771 metal binding site 2 [ion binding]; metal-binding site 311424001772 putative DNA binding helix; other site 311424001773 metal binding site 1 [ion binding]; metal-binding site 311424001774 dimer interface [polypeptide binding]; other site 311424001775 structural Zn2+ binding site [ion binding]; other site 311424001776 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 311424001777 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 311424001778 intersubunit interface [polypeptide binding]; other site 311424001779 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 311424001780 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 311424001781 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 311424001782 ABC-ATPase subunit interface; other site 311424001783 dimer interface [polypeptide binding]; other site 311424001784 putative PBP binding regions; other site 311424001785 cell division protein FtsZ; Validated; Region: PRK09330 311424001786 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 311424001787 nucleotide binding site [chemical binding]; other site 311424001788 SulA interaction site; other site 311424001789 cell division protein FtsA; Region: ftsA; TIGR01174 311424001790 Cell division protein FtsA; Region: FtsA; smart00842 311424001791 Cell division protein FtsA; Region: FtsA; pfam14450 311424001792 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 311424001793 Ligand Binding Site [chemical binding]; other site 311424001794 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 311424001795 Ligand Binding Site [chemical binding]; other site 311424001796 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 311424001797 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 311424001798 substrate binding site [chemical binding]; other site 311424001799 hexamer interface [polypeptide binding]; other site 311424001800 metal binding site [ion binding]; metal-binding site 311424001801 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 311424001802 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 311424001803 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 311424001804 TPP-binding site [chemical binding]; other site 311424001805 dimer interface [polypeptide binding]; other site 311424001806 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 311424001807 PYR/PP interface [polypeptide binding]; other site 311424001808 dimer interface [polypeptide binding]; other site 311424001809 TPP binding site [chemical binding]; other site 311424001810 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 311424001811 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 311424001812 putative FMN binding site [chemical binding]; other site 311424001813 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 311424001814 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 311424001815 S-adenosylmethionine binding site [chemical binding]; other site 311424001816 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 311424001817 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 311424001818 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 311424001819 cobalamin binding residues [chemical binding]; other site 311424001820 putative BtuC binding residues; other site 311424001821 dimer interface [polypeptide binding]; other site 311424001822 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 311424001823 ABC-ATPase subunit interface; other site 311424001824 dimer interface [polypeptide binding]; other site 311424001825 putative PBP binding regions; other site 311424001826 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 311424001827 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311424001828 Walker A/P-loop; other site 311424001829 ATP binding site [chemical binding]; other site 311424001830 Q-loop/lid; other site 311424001831 ABC transporter signature motif; other site 311424001832 Walker B; other site 311424001833 D-loop; other site 311424001834 H-loop/switch region; other site 311424001835 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 311424001836 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 311424001837 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 311424001838 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 311424001839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424001840 homodimer interface [polypeptide binding]; other site 311424001841 catalytic residue [active] 311424001842 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 311424001843 putative dimer interface [polypeptide binding]; other site 311424001844 active site pocket [active] 311424001845 putative cataytic base [active] 311424001846 cobalamin synthase; Reviewed; Region: cobS; PRK00235 311424001847 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 311424001848 catalytic core [active] 311424001849 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 311424001850 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 311424001851 catalytic residues [active] 311424001852 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 311424001853 Histidine kinase; Region: HisKA_3; pfam07730 311424001854 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 311424001855 ATP binding site [chemical binding]; other site 311424001856 Mg2+ binding site [ion binding]; other site 311424001857 G-X-G motif; other site 311424001858 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424001859 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 311424001860 active site 311424001861 phosphorylation site [posttranslational modification] 311424001862 intermolecular recognition site; other site 311424001863 dimerization interface [polypeptide binding]; other site 311424001864 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 311424001865 DNA binding residues [nucleotide binding] 311424001866 dimerization interface [polypeptide binding]; other site 311424001867 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 311424001868 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 311424001869 Putative Fe-S cluster; Region: FeS; pfam04060 311424001870 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 311424001871 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 311424001872 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; cl19102 311424001873 ACS interaction site; other site 311424001874 CODH interaction site; other site 311424001875 metal cluster binding site [ion binding]; other site 311424001876 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 311424001877 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 311424001878 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 311424001879 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 311424001880 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 311424001881 homodimer interface [polypeptide binding]; other site 311424001882 NADP binding site [chemical binding]; other site 311424001883 substrate binding site [chemical binding]; other site 311424001884 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 311424001885 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 311424001886 P-loop; other site 311424001887 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 311424001888 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 311424001889 catalytic loop [active] 311424001890 iron binding site [ion binding]; other site 311424001891 Domain of unknown function (DUF4445); Region: DUF4445; pfam14574 311424001892 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 311424001893 Potassium binding sites [ion binding]; other site 311424001894 Cesium cation binding sites [ion binding]; other site 311424001895 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 311424001896 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 311424001897 dimer interface [polypeptide binding]; other site 311424001898 anticodon binding site; other site 311424001899 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 311424001900 homodimer interface [polypeptide binding]; other site 311424001901 motif 1; other site 311424001902 active site 311424001903 motif 2; other site 311424001904 GAD domain; Region: GAD; pfam02938 311424001905 motif 3; other site 311424001906 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 311424001907 trigger factor; Region: tig; TIGR00115 311424001908 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 311424001909 Clp protease; Region: CLP_protease; pfam00574 311424001910 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 311424001911 oligomer interface [polypeptide binding]; other site 311424001912 active site residues [active] 311424001913 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311424001914 substrate binding site [chemical binding]; other site 311424001915 ATP binding site [chemical binding]; other site 311424001916 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 311424001917 active site 311424001918 substrate binding site [chemical binding]; other site 311424001919 cosubstrate binding site; other site 311424001920 catalytic site [active] 311424001921 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 311424001922 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 311424001923 active site 311424001924 PHP-associated; Region: PHP_C; pfam13263 311424001925 translation elongation factor P; Region: efp; TIGR00038 311424001926 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 311424001927 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 311424001928 RNA binding site [nucleotide binding]; other site 311424001929 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 311424001930 RNA binding site [nucleotide binding]; other site 311424001931 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 311424001932 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 311424001933 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 311424001934 active site 311424001935 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 311424001936 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 311424001937 active site 311424001938 Int/Topo IB signature motif; other site 311424001939 DNA topoisomerase I; Validated; Region: PRK05582 311424001940 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 311424001941 active site 311424001942 interdomain interaction site; other site 311424001943 putative metal-binding site [ion binding]; other site 311424001944 nucleotide binding site [chemical binding]; other site 311424001945 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 311424001946 domain I; other site 311424001947 DNA binding groove [nucleotide binding] 311424001948 phosphate binding site [ion binding]; other site 311424001949 domain II; other site 311424001950 domain III; other site 311424001951 nucleotide binding site [chemical binding]; other site 311424001952 catalytic site [active] 311424001953 domain IV; other site 311424001954 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 311424001955 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 311424001956 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 311424001957 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 311424001958 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 311424001959 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 311424001960 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; cl19102 311424001961 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 311424001962 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 311424001963 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 311424001964 dimer interface [polypeptide binding]; other site 311424001965 PYR/PP interface [polypeptide binding]; other site 311424001966 TPP binding site [chemical binding]; other site 311424001967 substrate binding site [chemical binding]; other site 311424001968 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 311424001969 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 311424001970 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 311424001971 TPP-binding site [chemical binding]; other site 311424001972 putative dimer interface [polypeptide binding]; other site 311424001973 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 311424001974 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 311424001975 putative dimer interface [polypeptide binding]; other site 311424001976 [2Fe-2S] cluster binding site [ion binding]; other site 311424001977 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 311424001978 dimer interface [polypeptide binding]; other site 311424001979 [2Fe-2S] cluster binding site [ion binding]; other site 311424001980 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 311424001981 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 311424001982 SLBB domain; Region: SLBB; pfam10531 311424001983 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 311424001984 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; cl19102 311424001985 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424001986 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 311424001987 catalytic loop [active] 311424001988 iron binding site [ion binding]; other site 311424001989 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 311424001990 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424001991 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 311424001992 4Fe-4S binding domain; Region: Fer4; pfam00037 311424001993 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 311424001994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 311424001995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311424001996 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 311424001997 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 311424001998 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 311424001999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311424002000 NAD(P) binding site [chemical binding]; other site 311424002001 active site 311424002002 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 311424002003 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 311424002004 HflX GTPase family; Region: HflX; cd01878 311424002005 G1 box; other site 311424002006 GTP/Mg2+ binding site [chemical binding]; other site 311424002007 Switch I region; other site 311424002008 G2 box; other site 311424002009 G3 box; other site 311424002010 Switch II region; other site 311424002011 G4 box; other site 311424002012 G5 box; other site 311424002013 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 311424002014 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 311424002015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424002016 homodimer interface [polypeptide binding]; other site 311424002017 catalytic residue [active] 311424002018 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 311424002019 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 311424002020 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 311424002021 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 311424002022 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 311424002023 substrate binding site [chemical binding]; other site 311424002024 dimer interface [polypeptide binding]; other site 311424002025 catalytic triad [active] 311424002026 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04135 311424002027 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 311424002028 substrate binding site [chemical binding]; other site 311424002029 hinge regions; other site 311424002030 ADP binding site [chemical binding]; other site 311424002031 catalytic site [active] 311424002032 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 311424002033 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 311424002034 TPP-binding site; other site 311424002035 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 311424002036 PYR/PP interface [polypeptide binding]; other site 311424002037 dimer interface [polypeptide binding]; other site 311424002038 TPP binding site [chemical binding]; other site 311424002039 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 311424002040 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 311424002041 GAF domain; Region: GAF_2; pfam13185 311424002042 Phage endonuclease I; Region: Phage_endo_I; cl11622 311424002043 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424002044 active site 311424002045 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 311424002046 23S rRNA binding site [nucleotide binding]; other site 311424002047 L21 binding site [polypeptide binding]; other site 311424002048 L13 binding site [polypeptide binding]; other site 311424002049 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 311424002050 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 311424002051 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 311424002052 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 311424002053 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 311424002054 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 311424002055 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 311424002056 active site 311424002057 dimer interface [polypeptide binding]; other site 311424002058 motif 1; other site 311424002059 motif 2; other site 311424002060 motif 3; other site 311424002061 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 311424002062 anticodon binding site; other site 311424002063 MAEBL; Provisional; Region: PTZ00121 311424002064 MAEBL; Provisional; Region: PTZ00121 311424002065 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 311424002066 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311424002067 catalytic residue [active] 311424002068 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 311424002069 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 311424002070 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 311424002071 active site 311424002072 catalytic residues [active] 311424002073 metal binding site [ion binding]; metal-binding site 311424002074 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 311424002075 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 311424002076 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 311424002077 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 311424002078 Predicted membrane protein [Function unknown]; Region: COG4818 311424002079 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 311424002080 Peptidase family M50; Region: Peptidase_M50; pfam02163 311424002081 active site 311424002082 putative substrate binding region [chemical binding]; other site 311424002083 FOG: CBS domain [General function prediction only]; Region: COG0517 311424002084 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 311424002085 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 311424002086 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 311424002087 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 311424002088 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 311424002089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 311424002090 CAAX protease self-immunity; Region: Abi; pfam02517 311424002091 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 311424002092 Peptidase family M50; Region: Peptidase_M50; pfam02163 311424002093 active site 311424002094 putative substrate binding region [chemical binding]; other site 311424002095 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; cd02205 311424002096 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 311424002097 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 311424002098 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 311424002099 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 311424002100 Walker A motif; other site 311424002101 ATP binding site [chemical binding]; other site 311424002102 Walker B motif; other site 311424002103 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 311424002104 RxxxH motif; other site 311424002105 thymidylate kinase; Validated; Region: tmk; PRK00698 311424002106 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 311424002107 TMP-binding site; other site 311424002108 ATP-binding site [chemical binding]; other site 311424002109 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 311424002110 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 311424002111 Ligand Binding Site [chemical binding]; other site 311424002112 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 311424002113 RNA/DNA hybrid binding site [nucleotide binding]; other site 311424002114 active site 311424002115 hypothetical protein; Provisional; Region: PRK14688 311424002116 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 311424002117 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 311424002118 thiamine phosphate binding site [chemical binding]; other site 311424002119 active site 311424002120 pyrophosphate binding site [ion binding]; other site 311424002121 haloacid dehalogenase superfamily protein; Provisional; Region: PRK14562 311424002122 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 311424002123 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 311424002124 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 311424002125 glycyl-tRNA synthetase; Provisional; Region: PRK04173 311424002126 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 311424002127 dimer interface [polypeptide binding]; other site 311424002128 motif 1; other site 311424002129 active site 311424002130 motif 2; other site 311424002131 motif 3; other site 311424002132 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 311424002133 anticodon binding site; other site 311424002134 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 311424002135 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 311424002136 active site 311424002137 metal binding site [ion binding]; metal-binding site 311424002138 DNA binding site [nucleotide binding] 311424002139 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 311424002140 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 311424002141 RNA binding surface [nucleotide binding]; other site 311424002142 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 311424002143 active site 311424002144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424002145 active site 311424002146 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 311424002147 dimer interface [polypeptide binding]; other site 311424002148 substrate binding pocket (H-site) [chemical binding]; other site 311424002149 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 311424002150 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 311424002151 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 311424002152 active site 311424002153 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424002154 active site 311424002155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424002156 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 311424002157 Walker A/P-loop; other site 311424002158 ATP binding site [chemical binding]; other site 311424002159 Q-loop/lid; other site 311424002160 ABC transporter signature motif; other site 311424002161 Walker B; other site 311424002162 D-loop; other site 311424002163 H-loop/switch region; other site 311424002164 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 311424002165 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 311424002166 ABC-2 type transporter; Region: ABC2_membrane; cl17235 311424002167 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 311424002168 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 311424002169 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 311424002170 Uncharacterized conserved protein [Function unknown]; Region: COG5495 311424002171 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 311424002172 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 311424002173 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 311424002174 tetramerization interface [polypeptide binding]; other site 311424002175 active site 311424002176 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 311424002177 oligomerization interface [polypeptide binding]; other site 311424002178 active site 311424002179 metal binding site [ion binding]; metal-binding site 311424002180 Pantoate-beta-alanine ligase; Region: PanC; cd00560 311424002181 active site 311424002182 ATP-binding site [chemical binding]; other site 311424002183 pantoate-binding site; other site 311424002184 HXXH motif; other site 311424002185 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 311424002186 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311424002187 putative substrate translocation pore; other site 311424002188 Predicted transcriptional regulators [Transcription]; Region: COG1695 311424002189 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424002190 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 311424002191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 311424002192 Predicted membrane protein (DUF2070); Region: DUF2070; cl19221 311424002193 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 311424002194 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311424002195 Walker A/P-loop; other site 311424002196 ATP binding site [chemical binding]; other site 311424002197 Q-loop/lid; other site 311424002198 ABC transporter signature motif; other site 311424002199 Walker B; other site 311424002200 D-loop; other site 311424002201 H-loop/switch region; other site 311424002202 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 311424002203 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311424002204 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 311424002205 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 311424002206 Walker A/P-loop; other site 311424002207 ATP binding site [chemical binding]; other site 311424002208 Q-loop/lid; other site 311424002209 ABC transporter signature motif; other site 311424002210 Walker B; other site 311424002211 D-loop; other site 311424002212 H-loop/switch region; other site 311424002213 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 311424002214 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 311424002215 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 311424002216 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 311424002217 Walker A/P-loop; other site 311424002218 ATP binding site [chemical binding]; other site 311424002219 Q-loop/lid; other site 311424002220 ABC transporter signature motif; other site 311424002221 Walker B; other site 311424002222 D-loop; other site 311424002223 H-loop/switch region; other site 311424002224 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 311424002225 dimerization interface [polypeptide binding]; other site 311424002226 active site 311424002227 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 311424002228 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 311424002229 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 311424002230 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 311424002231 putative FMN binding site [chemical binding]; other site 311424002232 NADPH bind site [chemical binding]; other site 311424002233 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 311424002234 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 311424002235 active site 311424002236 catalytic residues [active] 311424002237 metal binding site [ion binding]; metal-binding site 311424002238 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 311424002239 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 311424002240 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 311424002241 substrate binding site [chemical binding]; other site 311424002242 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 311424002243 substrate binding site [chemical binding]; other site 311424002244 ligand binding site [chemical binding]; other site 311424002245 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 311424002246 MgtC family; Region: MgtC; pfam02308 311424002247 2-isopropylmalate synthase; Validated; Region: PRK00915 311424002248 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 311424002249 active site 311424002250 catalytic residues [active] 311424002251 metal binding site [ion binding]; metal-binding site 311424002252 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 311424002253 ketol-acid reductoisomerase; Provisional; Region: PRK05479 311424002254 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 311424002255 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 311424002256 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 311424002257 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 311424002258 putative valine binding site [chemical binding]; other site 311424002259 dimer interface [polypeptide binding]; other site 311424002260 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 311424002261 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 311424002262 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 311424002263 PYR/PP interface [polypeptide binding]; other site 311424002264 dimer interface [polypeptide binding]; other site 311424002265 TPP binding site [chemical binding]; other site 311424002266 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 311424002267 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 311424002268 TPP-binding site [chemical binding]; other site 311424002269 dimer interface [polypeptide binding]; other site 311424002270 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 311424002271 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 311424002272 GMP synthase; Reviewed; Region: guaA; PRK00074 311424002273 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 311424002274 AMP/PPi binding site [chemical binding]; other site 311424002275 candidate oxyanion hole; other site 311424002276 catalytic triad [active] 311424002277 potential glutamine specificity residues [chemical binding]; other site 311424002278 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 311424002279 ATP Binding subdomain [chemical binding]; other site 311424002280 Ligand Binding sites [chemical binding]; other site 311424002281 Dimerization subdomain; other site 311424002282 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 311424002283 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 311424002284 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 311424002285 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 311424002286 AIR carboxylase; Region: AIRC; pfam00731 311424002287 adenylosuccinate lyase; Provisional; Region: PRK07492 311424002288 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 311424002289 tetramer interface [polypeptide binding]; other site 311424002290 active site 311424002291 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 311424002292 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 311424002293 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 311424002294 active site 311424002295 ATP binding site [chemical binding]; other site 311424002296 substrate binding site [chemical binding]; other site 311424002297 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 311424002298 putative active site pocket [active] 311424002299 4-fold oligomerization interface [polypeptide binding]; other site 311424002300 metal binding residues [ion binding]; metal-binding site 311424002301 3-fold/trimer interface [polypeptide binding]; other site 311424002302 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 311424002303 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 311424002304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424002305 homodimer interface [polypeptide binding]; other site 311424002306 catalytic residue [active] 311424002307 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 311424002308 histidinol dehydrogenase; Region: hisD; TIGR00069 311424002309 NAD binding site [chemical binding]; other site 311424002310 dimerization interface [polypeptide binding]; other site 311424002311 product binding site; other site 311424002312 substrate binding site [chemical binding]; other site 311424002313 zinc binding site [ion binding]; other site 311424002314 catalytic residues [active] 311424002315 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 311424002316 ATP phosphoribosyltransferase; Region: HisG; cl15266 311424002317 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 311424002318 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 311424002319 dimer interface [polypeptide binding]; other site 311424002320 motif 1; other site 311424002321 active site 311424002322 motif 2; other site 311424002323 motif 3; other site 311424002324 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 311424002325 prohibitin homologues; Region: PHB; smart00244 311424002326 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u1; cd08826 311424002327 trimer interface [polypeptide binding]; other site 311424002328 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 311424002329 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 311424002330 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 311424002331 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 311424002332 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 311424002333 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 311424002334 Walker A/P-loop; other site 311424002335 ATP binding site [chemical binding]; other site 311424002336 Q-loop/lid; other site 311424002337 ABC transporter signature motif; other site 311424002338 Walker B; other site 311424002339 D-loop; other site 311424002340 H-loop/switch region; other site 311424002341 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 311424002342 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 311424002343 Acyltransferase family; Region: Acyl_transf_3; cl19154 311424002344 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 311424002345 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 311424002346 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 311424002347 FeS/SAM binding site; other site 311424002348 HemN C-terminal domain; Region: HemN_C; pfam06969 311424002349 GTP-binding protein LepA; Provisional; Region: PRK05433 311424002350 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 311424002351 G1 box; other site 311424002352 putative GEF interaction site [polypeptide binding]; other site 311424002353 GTP/Mg2+ binding site [chemical binding]; other site 311424002354 Switch I region; other site 311424002355 G2 box; other site 311424002356 G3 box; other site 311424002357 Switch II region; other site 311424002358 G4 box; other site 311424002359 G5 box; other site 311424002360 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 311424002361 Elongation Factor G, domain II; Region: EFG_II; pfam14492 311424002362 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 311424002363 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 311424002364 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 311424002365 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311424002366 NADH dehydrogenase; Region: NADHdh; cl00469 311424002367 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 311424002368 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 311424002369 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 311424002370 putative dimer interface [polypeptide binding]; other site 311424002371 [2Fe-2S] cluster binding site [ion binding]; other site 311424002372 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 311424002373 dimer interface [polypeptide binding]; other site 311424002374 [2Fe-2S] cluster binding site [ion binding]; other site 311424002375 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 311424002376 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 311424002377 SLBB domain; Region: SLBB; pfam10531 311424002378 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 311424002379 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 311424002380 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424002381 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 311424002382 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 311424002383 catalytic loop [active] 311424002384 iron binding site [ion binding]; other site 311424002385 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; cl19102 311424002386 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 311424002387 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 311424002388 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 311424002389 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; cl19102 311424002390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311424002391 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311424002392 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 311424002393 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 311424002394 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; cl19102 311424002395 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424002396 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311424002397 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 311424002398 motif 1; other site 311424002399 dimer interface [polypeptide binding]; other site 311424002400 active site 311424002401 motif 2; other site 311424002402 motif 3; other site 311424002403 elongation factor P; Validated; Region: PRK00529 311424002404 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 311424002405 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 311424002406 RNA binding site [nucleotide binding]; other site 311424002407 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 311424002408 RNA binding site [nucleotide binding]; other site 311424002409 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424002410 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; cl17220 311424002411 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 311424002412 MMPL family; Region: MMPL; pfam03176 311424002413 MMPL family; Region: MMPL; cl14618 311424002414 putative transposase OrfB; Reviewed; Region: PHA02517 311424002415 HTH-like domain; Region: HTH_21; pfam13276 311424002416 Integrase core domain; Region: rve; pfam00665 311424002417 Integrase core domain; Region: rve_3; pfam13683 311424002418 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311424002419 Transposase; Region: HTH_Tnp_1; pfam01527 311424002420 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 311424002421 putative Zn2+ binding site [ion binding]; other site 311424002422 putative DNA binding site [nucleotide binding]; other site 311424002423 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 311424002424 Citrate transporter; Region: CitMHS; pfam03600 311424002425 transmembrane helices; other site 311424002426 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 311424002427 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311424002428 putative substrate translocation pore; other site 311424002429 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 311424002430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424002431 active site 311424002432 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 311424002433 diiron binding motif [ion binding]; other site 311424002434 PAC2 family; Region: PAC2; pfam09754 311424002435 PAC2 family; Region: PAC2; pfam09754 311424002436 ATP-dependent DNA ligase; Provisional; Region: PRK01109 311424002437 hypothetical protein; Provisional; Region: PRK04334 311424002438 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 311424002439 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424002440 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; cl19102 311424002441 Domain of unknown function DUF39; Region: DUF39; pfam01837 311424002442 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 311424002443 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 311424002444 Walker A motif; other site 311424002445 ATP binding site [chemical binding]; other site 311424002446 Walker B motif; other site 311424002447 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 311424002448 NADH dehydrogenase subunit B; Validated; Region: PRK06411 311424002449 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 311424002450 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 311424002451 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 311424002452 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 311424002453 Ferredoxin [Energy production and conversion]; Region: COG1146 311424002454 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424002455 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424002456 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl17265 311424002457 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 311424002458 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 311424002459 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 311424002460 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311424002461 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 311424002462 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311424002463 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 311424002464 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311424002465 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 311424002466 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 311424002467 active site 311424002468 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 311424002469 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 311424002470 minor groove reading motif; other site 311424002471 helix-hairpin-helix signature motif; other site 311424002472 substrate binding pocket [chemical binding]; other site 311424002473 active site 311424002474 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 311424002475 cobyric acid synthase; Provisional; Region: PRK00784 311424002476 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311424002477 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 311424002478 catalytic triad [active] 311424002479 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 311424002480 CoenzymeA binding site [chemical binding]; other site 311424002481 subunit interaction site [polypeptide binding]; other site 311424002482 PHB binding site; other site 311424002483 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311424002484 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311424002485 Walker A/P-loop; other site 311424002486 ATP binding site [chemical binding]; other site 311424002487 Q-loop/lid; other site 311424002488 ABC transporter signature motif; other site 311424002489 Walker B; other site 311424002490 D-loop; other site 311424002491 H-loop/switch region; other site 311424002492 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 311424002493 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 311424002494 acyl-activating enzyme (AAE) consensus motif; other site 311424002495 active site 311424002496 AMP binding site [chemical binding]; other site 311424002497 CoA binding site [chemical binding]; other site 311424002498 AMP-binding enzyme C-terminal domain; Region: AMP-binding_C; cl17063 311424002499 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311424002500 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311424002501 Walker A/P-loop; other site 311424002502 ATP binding site [chemical binding]; other site 311424002503 Q-loop/lid; other site 311424002504 ABC transporter signature motif; other site 311424002505 Walker B; other site 311424002506 D-loop; other site 311424002507 H-loop/switch region; other site 311424002508 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 311424002509 ligand binding site [chemical binding]; other site 311424002510 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 311424002511 ligand binding site [chemical binding]; other site 311424002512 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 311424002513 TM-ABC transporter signature motif; other site 311424002514 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 311424002515 TM-ABC transporter signature motif; other site 311424002516 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 311424002517 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 311424002518 acyl-activating enzyme (AAE) consensus motif; other site 311424002519 putative AMP binding site [chemical binding]; other site 311424002520 putative active site [active] 311424002521 putative CoA binding site [chemical binding]; other site 311424002522 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 311424002523 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 311424002524 dimer interface [polypeptide binding]; other site 311424002525 PYR/PP interface [polypeptide binding]; other site 311424002526 TPP binding site [chemical binding]; other site 311424002527 substrate binding site [chemical binding]; other site 311424002528 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 311424002529 TPP-binding site; other site 311424002530 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 311424002531 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 311424002532 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 311424002533 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 311424002534 trimerization site [polypeptide binding]; other site 311424002535 active site 311424002536 Predicted membrane protein [Function unknown]; Region: COG3462 311424002537 Short C-terminal domain; Region: SHOCT; pfam09851 311424002538 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 311424002539 metal-binding site [ion binding] 311424002540 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311424002541 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 311424002542 metal-binding site [ion binding] 311424002543 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311424002544 Soluble P-type ATPase [General function prediction only]; Region: COG4087 311424002545 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 311424002546 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 311424002547 putative dimer interface [polypeptide binding]; other site 311424002548 Ferritin-like domain; Region: Ferritin; pfam00210 311424002549 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 311424002550 dinuclear metal binding motif [ion binding]; other site 311424002551 Ferritin-like domain; Region: Ferritin; pfam00210 311424002552 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 311424002553 dinuclear metal binding motif [ion binding]; other site 311424002554 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 311424002555 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 311424002556 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 311424002557 Double zinc ribbon; Region: DZR; pfam12773 311424002558 HemX; Region: HemX; cl19375 311424002559 Smr domain; Region: Smr; pfam01713 311424002560 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 311424002561 substrate binding site [chemical binding]; other site 311424002562 glutamase interaction surface [polypeptide binding]; other site 311424002563 Repressor of nif and glnA expression [Transcription]; Region: COG1693 311424002564 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 311424002565 Domain of unknown function DUF128; Region: DUF128; pfam01995 311424002566 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 311424002567 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 311424002568 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 311424002569 FeS/SAM binding site; other site 311424002570 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 311424002571 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 311424002572 dimer interface [polypeptide binding]; other site 311424002573 active site 311424002574 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 311424002575 DHH family; Region: DHH; pfam01368 311424002576 DHHA1 domain; Region: DHHA1; pfam02272 311424002577 membrane protein; Provisional; Region: PRK14414 311424002578 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 311424002579 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 311424002580 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 311424002581 ATP binding site [chemical binding]; other site 311424002582 putative Mg++ binding site [ion binding]; other site 311424002583 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 311424002584 nucleotide binding region [chemical binding]; other site 311424002585 ATP-binding site [chemical binding]; other site 311424002586 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 311424002587 Protein of unknown function (DUF503); Region: DUF503; pfam04456 311424002588 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 311424002589 16S/18S rRNA binding site [nucleotide binding]; other site 311424002590 S13e-L30e interaction site [polypeptide binding]; other site 311424002591 25S rRNA binding site [nucleotide binding]; other site 311424002592 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 311424002593 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 311424002594 RNase E interface [polypeptide binding]; other site 311424002595 trimer interface [polypeptide binding]; other site 311424002596 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 311424002597 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 311424002598 RNase E interface [polypeptide binding]; other site 311424002599 trimer interface [polypeptide binding]; other site 311424002600 active site 311424002601 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 311424002602 putative nucleic acid binding region [nucleotide binding]; other site 311424002603 G-X-X-G motif; other site 311424002604 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 311424002605 RNA binding site [nucleotide binding]; other site 311424002606 domain interface; other site 311424002607 dihydrodipicolinate reductase; Provisional; Region: PRK00048 311424002608 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 311424002609 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 311424002610 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 311424002611 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 311424002612 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 311424002613 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 311424002614 dimer interface [polypeptide binding]; other site 311424002615 active site 311424002616 catalytic residue [active] 311424002617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424002618 Coenzyme A binding pocket [chemical binding]; other site 311424002619 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311424002620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424002621 Coenzyme A binding pocket [chemical binding]; other site 311424002622 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 311424002623 GDP-binding site [chemical binding]; other site 311424002624 ACT binding site; other site 311424002625 IMP binding site; other site 311424002626 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 311424002627 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311424002628 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 311424002629 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 311424002630 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 311424002631 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 311424002632 RNA binding site [nucleotide binding]; other site 311424002633 active site 311424002634 Ribosome-binding factor A; Region: RBFA; pfam02033 311424002635 translation initiation factor IF-2; Region: IF-2; TIGR00487 311424002636 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 311424002637 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 311424002638 G1 box; other site 311424002639 putative GEF interaction site [polypeptide binding]; other site 311424002640 GTP/Mg2+ binding site [chemical binding]; other site 311424002641 Switch I region; other site 311424002642 G2 box; other site 311424002643 G3 box; other site 311424002644 Switch II region; other site 311424002645 G4 box; other site 311424002646 G5 box; other site 311424002647 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 311424002648 Translation-initiation factor 2; Region: IF-2; pfam11987 311424002649 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 311424002650 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 311424002651 NusA N-terminal domain; Region: NusA_N; pfam08529 311424002652 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 311424002653 RNA binding site [nucleotide binding]; other site 311424002654 homodimer interface [polypeptide binding]; other site 311424002655 NusA-like KH domain; Region: KH_5; pfam13184 311424002656 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 311424002657 G-X-X-G motif; other site 311424002658 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 311424002659 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 311424002660 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 311424002661 Walker A motif; other site 311424002662 ATP binding site [chemical binding]; other site 311424002663 Walker B motif; other site 311424002664 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 311424002665 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311424002666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311424002667 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 311424002668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424002669 Coenzyme A binding pocket [chemical binding]; other site 311424002670 Protein of unknown function (DUF502); Region: DUF502; cl01107 311424002671 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 311424002672 core dimer interface [polypeptide binding]; other site 311424002673 peripheral dimer interface [polypeptide binding]; other site 311424002674 L10 interface [polypeptide binding]; other site 311424002675 L11 interface [polypeptide binding]; other site 311424002676 putative EF-Tu interaction site [polypeptide binding]; other site 311424002677 putative EF-G interaction site [polypeptide binding]; other site 311424002678 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 311424002679 23S rRNA interface [nucleotide binding]; other site 311424002680 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 311424002681 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 311424002682 mRNA/rRNA interface [nucleotide binding]; other site 311424002683 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 311424002684 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 311424002685 23S rRNA interface [nucleotide binding]; other site 311424002686 L7/L12 interface [polypeptide binding]; other site 311424002687 putative thiostrepton binding site; other site 311424002688 L25 interface [polypeptide binding]; other site 311424002689 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 311424002690 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 311424002691 putative homodimer interface [polypeptide binding]; other site 311424002692 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 311424002693 heterodimer interface [polypeptide binding]; other site 311424002694 homodimer interface [polypeptide binding]; other site 311424002695 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 311424002696 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 311424002697 elongation factor Tu; Reviewed; Region: PRK00049 311424002698 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 311424002699 G1 box; other site 311424002700 GEF interaction site [polypeptide binding]; other site 311424002701 GTP/Mg2+ binding site [chemical binding]; other site 311424002702 Switch I region; other site 311424002703 G2 box; other site 311424002704 G3 box; other site 311424002705 Switch II region; other site 311424002706 G4 box; other site 311424002707 G5 box; other site 311424002708 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 311424002709 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 311424002710 Antibiotic Binding Site [chemical binding]; other site 311424002711 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 311424002712 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 311424002713 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 311424002714 putative ADP-binding pocket [chemical binding]; other site 311424002715 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 311424002716 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 311424002717 dimerization interface [polypeptide binding]; other site 311424002718 putative DNA binding site [nucleotide binding]; other site 311424002719 putative Zn2+ binding site [ion binding]; other site 311424002720 Predicted permease; Region: DUF318; cl17795 311424002721 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 311424002722 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 311424002723 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 311424002724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311424002725 putative substrate translocation pore; other site 311424002726 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424002727 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424002728 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; cl19102 311424002729 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424002730 HPP family; Region: HPP; pfam04982 311424002731 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 311424002732 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 311424002733 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 311424002734 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 311424002735 acyl-activating enzyme (AAE) consensus motif; other site 311424002736 AMP binding site [chemical binding]; other site 311424002737 active site 311424002738 CoA binding site [chemical binding]; other site 311424002739 PAS domain S-box; Region: sensory_box; TIGR00229 311424002740 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 311424002741 putative active site [active] 311424002742 heme pocket [chemical binding]; other site 311424002743 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 311424002744 PAS domain; Region: PAS_9; pfam13426 311424002745 putative active site [active] 311424002746 heme pocket [chemical binding]; other site 311424002747 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 311424002748 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424002749 putative active site [active] 311424002750 heme pocket [chemical binding]; other site 311424002751 PAS domain S-box; Region: sensory_box; TIGR00229 311424002752 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 311424002753 putative active site [active] 311424002754 heme pocket [chemical binding]; other site 311424002755 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 311424002756 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424002757 putative active site [active] 311424002758 heme pocket [chemical binding]; other site 311424002759 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 311424002760 putative active site [active] 311424002761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424002762 heme pocket [chemical binding]; other site 311424002763 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 311424002764 dimer interface [polypeptide binding]; other site 311424002765 phosphorylation site [posttranslational modification] 311424002766 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 311424002767 ATP binding site [chemical binding]; other site 311424002768 Mg2+ binding site [ion binding]; other site 311424002769 G-X-G motif; other site 311424002770 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 311424002771 active site 311424002772 phosphorylation site [posttranslational modification] 311424002773 intermolecular recognition site; other site 311424002774 dimerization interface [polypeptide binding]; other site 311424002775 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 311424002776 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424002777 Zn2+ binding site [ion binding]; other site 311424002778 Mg2+ binding site [ion binding]; other site 311424002779 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 311424002780 oligomer interface [polypeptide binding]; other site 311424002781 TPR repeat; Region: TPR_11; pfam13414 311424002782 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 311424002783 binding surface 311424002784 TPR motif; other site 311424002785 ribonuclease III; Reviewed; Region: rnc; PRK00102 311424002786 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 311424002787 dimerization interface [polypeptide binding]; other site 311424002788 active site 311424002789 metal binding site [ion binding]; metal-binding site 311424002790 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 311424002791 dsRNA binding site [nucleotide binding]; other site 311424002792 acylphosphatase; Provisional; Region: PRK14450 311424002793 Domain of unknown function (DUF362); Region: DUF362; cl19822 311424002794 multifunctional aminopeptidase A; Provisional; Region: PRK00913 311424002795 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 311424002796 interface (dimer of trimers) [polypeptide binding]; other site 311424002797 Substrate-binding/catalytic site; other site 311424002798 Zn-binding sites [ion binding]; other site 311424002799 AAA domain; Region: AAA_17; cl19128 311424002800 AAA domain; Region: AAA_33; pfam13671 311424002801 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424002802 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 311424002803 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 311424002804 acyl-activating enzyme (AAE) consensus motif; other site 311424002805 active site 311424002806 AMP binding site [chemical binding]; other site 311424002807 CoA binding site [chemical binding]; other site 311424002808 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 311424002809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424002810 catalytic residue [active] 311424002811 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311424002812 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 311424002813 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311424002814 PDZ domain of trypsin-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 311424002815 protein binding site [polypeptide binding]; other site 311424002816 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 311424002817 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 311424002818 active site 311424002819 HIGH motif; other site 311424002820 nucleotide binding site [chemical binding]; other site 311424002821 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 311424002822 active site 311424002823 KMSKS motif; other site 311424002824 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 311424002825 tRNA binding surface [nucleotide binding]; other site 311424002826 anticodon binding site; other site 311424002827 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 311424002828 Jag N-terminus; Region: Jag_N; pfam14804 311424002829 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 311424002830 G-X-X-G motif; other site 311424002831 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 311424002832 RxxxH motif; other site 311424002833 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 311424002834 FOG: WD40-like repeat [Function unknown]; Region: COG1520 311424002835 beta-propeller repeat; Region: PQQ; smart00564 311424002836 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 311424002837 Trp docking motif [polypeptide binding]; other site 311424002838 active site 311424002839 Haemolytic domain; Region: Haemolytic; pfam01809 311424002840 Ribonuclease P; Region: Ribonuclease_P; pfam00825 311424002841 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 311424002842 30S ribosomal protein S18; Provisional; Region: PRK13400 311424002843 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 311424002844 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 311424002845 dimer interface [polypeptide binding]; other site 311424002846 ssDNA binding site [nucleotide binding]; other site 311424002847 tetramer (dimer of dimers) interface [polypeptide binding]; other site 311424002848 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 311424002849 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 311424002850 homotrimer interaction site [polypeptide binding]; other site 311424002851 putative active site [active] 311424002852 SCIMP protein; Region: SCIMP; pfam15050 311424002853 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 311424002854 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 311424002855 nucleotide binding site [chemical binding]; other site 311424002856 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 311424002857 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 311424002858 Walker A/P-loop; other site 311424002859 ATP binding site [chemical binding]; other site 311424002860 Q-loop/lid; other site 311424002861 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 311424002862 Q-loop/lid; other site 311424002863 ABC transporter signature motif; other site 311424002864 Walker B; other site 311424002865 D-loop; other site 311424002866 H-loop/switch region; other site 311424002867 EamA-like transporter family; Region: EamA; pfam00892 311424002868 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 311424002869 EamA-like transporter family; Region: EamA; pfam00892 311424002870 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424002871 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 311424002872 active site 311424002873 phosphorylation site [posttranslational modification] 311424002874 intermolecular recognition site; other site 311424002875 dimerization interface [polypeptide binding]; other site 311424002876 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 311424002877 DNA binding site [nucleotide binding] 311424002878 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 311424002879 dimerization interface [polypeptide binding]; other site 311424002880 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 311424002881 dimer interface [polypeptide binding]; other site 311424002882 phosphorylation site [posttranslational modification] 311424002883 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 311424002884 ATP binding site [chemical binding]; other site 311424002885 Mg2+ binding site [ion binding]; other site 311424002886 G-X-G motif; other site 311424002887 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 311424002888 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311424002889 Walker A/P-loop; other site 311424002890 ATP binding site [chemical binding]; other site 311424002891 Q-loop/lid; other site 311424002892 ABC transporter signature motif; other site 311424002893 Walker B; other site 311424002894 D-loop; other site 311424002895 H-loop/switch region; other site 311424002896 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311424002897 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311424002898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311424002899 Walker A/P-loop; other site 311424002900 ATP binding site [chemical binding]; other site 311424002901 Q-loop/lid; other site 311424002902 ABC transporter signature motif; other site 311424002903 Walker B; other site 311424002904 D-loop; other site 311424002905 H-loop/switch region; other site 311424002906 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311424002907 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311424002908 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311424002909 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 311424002910 dimer interface [polypeptide binding]; other site 311424002911 conserved gate region; other site 311424002912 putative PBP binding loops; other site 311424002913 ABC-ATPase subunit interface; other site 311424002914 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311424002915 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 311424002916 dimer interface [polypeptide binding]; other site 311424002917 conserved gate region; other site 311424002918 putative PBP binding loops; other site 311424002919 ABC-ATPase subunit interface; other site 311424002920 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 311424002921 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 311424002922 peptide binding site [polypeptide binding]; other site 311424002923 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 311424002924 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 311424002925 Beta-Casp domain; Region: Beta-Casp; smart01027 311424002926 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 311424002927 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424002928 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 311424002929 active site 311424002930 phosphorylation site [posttranslational modification] 311424002931 intermolecular recognition site; other site 311424002932 dimerization interface [polypeptide binding]; other site 311424002933 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 311424002934 DNA binding residues [nucleotide binding] 311424002935 dimerization interface [polypeptide binding]; other site 311424002936 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 311424002937 PAS domain; Region: PAS_9; pfam13426 311424002938 putative active site [active] 311424002939 heme pocket [chemical binding]; other site 311424002940 PAS fold; Region: PAS_4; pfam08448 311424002941 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 311424002942 putative active site [active] 311424002943 heme pocket [chemical binding]; other site 311424002944 GAF domain; Region: GAF_2; pfam13185 311424002945 PAS domain S-box; Region: sensory_box; TIGR00229 311424002946 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 311424002947 putative active site [active] 311424002948 heme pocket [chemical binding]; other site 311424002949 PAS domain; Region: PAS; smart00091 311424002950 PAS domain; Region: PAS_9; pfam13426 311424002951 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424002952 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 311424002953 putative active site [active] 311424002954 heme pocket [chemical binding]; other site 311424002955 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 311424002956 putative active site [active] 311424002957 heme pocket [chemical binding]; other site 311424002958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311424002959 Histidine kinase; Region: HisKA_3; pfam07730 311424002960 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 311424002961 ATP binding site [chemical binding]; other site 311424002962 Mg2+ binding site [ion binding]; other site 311424002963 G-X-G motif; other site 311424002964 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 311424002965 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 311424002966 S-adenosylmethionine binding site [chemical binding]; other site 311424002967 Carbonic anhydrase; Region: Pro_CA; smart00947 311424002968 active site clefts [active] 311424002969 zinc binding site [ion binding]; other site 311424002970 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 311424002971 active site 311424002972 dimer interface [polypeptide binding]; other site 311424002973 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 311424002974 NAD synthetase; Provisional; Region: PRK13981 311424002975 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 311424002976 multimer interface [polypeptide binding]; other site 311424002977 active site 311424002978 catalytic triad [active] 311424002979 protein interface 1 [polypeptide binding]; other site 311424002980 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 311424002981 homodimer interface [polypeptide binding]; other site 311424002982 NAD binding pocket [chemical binding]; other site 311424002983 ATP binding pocket [chemical binding]; other site 311424002984 Mg binding site [ion binding]; other site 311424002985 active-site loop [active] 311424002986 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 311424002987 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 311424002988 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311424002989 Nitrogen regulatory protein P-II; Region: P-II; smart00938 311424002990 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 311424002991 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424002992 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 311424002993 DNA binding site [nucleotide binding] 311424002994 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 311424002995 putative subunit interface; other site 311424002996 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; cl19102 311424002997 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 311424002998 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 311424002999 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 311424003000 active site 311424003001 FMN binding site [chemical binding]; other site 311424003002 substrate binding site [chemical binding]; other site 311424003003 3Fe-4S cluster binding site [ion binding]; other site 311424003004 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 311424003005 substrate binding site [chemical binding]; other site 311424003006 glutamase interaction surface [polypeptide binding]; other site 311424003007 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 311424003008 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 311424003009 putative active site [active] 311424003010 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 311424003011 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311424003012 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 311424003013 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 311424003014 putative active site [active] 311424003015 oxyanion strand; other site 311424003016 catalytic triad [active] 311424003017 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 311424003018 Predicted membrane protein [Function unknown]; Region: COG1971 311424003019 Domain of unknown function DUF; Region: DUF204; pfam02659 311424003020 Domain of unknown function DUF; Region: DUF204; pfam02659 311424003021 cysteine synthase; Region: PLN02565 311424003022 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 311424003023 dimer interface [polypeptide binding]; other site 311424003024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424003025 catalytic residue [active] 311424003026 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424003027 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 311424003028 FeS/SAM binding site; other site 311424003029 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 311424003030 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 311424003031 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 311424003032 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 311424003033 active site 311424003034 catalytic triad [active] 311424003035 dimer interface [polypeptide binding]; other site 311424003036 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 311424003037 DXD motif; other site 311424003038 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 311424003039 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 311424003040 NodB motif; other site 311424003041 active site 311424003042 catalytic site [active] 311424003043 metal binding site [ion binding]; metal-binding site 311424003044 Protease prsW family; Region: PrsW-protease; pfam13367 311424003045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424003046 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 311424003047 Walker A/P-loop; other site 311424003048 ATP binding site [chemical binding]; other site 311424003049 Q-loop/lid; other site 311424003050 ABC transporter signature motif; other site 311424003051 Walker B; other site 311424003052 D-loop; other site 311424003053 H-loop/switch region; other site 311424003054 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311424003055 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311424003056 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 311424003057 Walker A/P-loop; other site 311424003058 ATP binding site [chemical binding]; other site 311424003059 Q-loop/lid; other site 311424003060 ABC transporter signature motif; other site 311424003061 Walker B; other site 311424003062 D-loop; other site 311424003063 H-loop/switch region; other site 311424003064 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 311424003065 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; cl19102 311424003066 BioY family; Region: BioY; pfam02632 311424003067 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; cd01342 311424003068 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 311424003069 homopentamer interface [polypeptide binding]; other site 311424003070 active site 311424003071 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 311424003072 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 311424003073 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 311424003074 dimerization interface [polypeptide binding]; other site 311424003075 active site 311424003076 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 311424003077 Lumazine binding domain; Region: Lum_binding; pfam00677 311424003078 Lumazine binding domain; Region: Lum_binding; pfam00677 311424003079 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 311424003080 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 311424003081 catalytic motif [active] 311424003082 Zn binding site [ion binding]; other site 311424003083 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 311424003084 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 311424003085 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 311424003086 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 311424003087 Catalytic site [active] 311424003088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424003089 active site 311424003090 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; pfam10107 311424003091 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 311424003092 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 311424003093 ATP binding site [chemical binding]; other site 311424003094 Mg2+ binding site [ion binding]; other site 311424003095 G-X-G motif; other site 311424003096 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 311424003097 ATP binding site [chemical binding]; other site 311424003098 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 311424003099 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 311424003100 Part of AAA domain; Region: AAA_19; pfam13245 311424003101 AAA domain; Region: AAA_12; pfam13087 311424003102 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 311424003103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424003104 active site 311424003105 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 311424003106 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 311424003107 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 311424003108 dihydroorotase; Validated; Region: pyrC; PRK09357 311424003109 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 311424003110 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 311424003111 active site 311424003112 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 311424003113 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 311424003114 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 311424003115 catalytic site [active] 311424003116 subunit interface [polypeptide binding]; other site 311424003117 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 311424003118 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311424003119 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 311424003120 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 311424003121 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311424003122 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311424003123 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 311424003124 IMP binding site; other site 311424003125 dimer interface [polypeptide binding]; other site 311424003126 interdomain contacts; other site 311424003127 partial ornithine binding site; other site 311424003128 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 311424003129 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 311424003130 FAD binding pocket [chemical binding]; other site 311424003131 FAD binding motif [chemical binding]; other site 311424003132 phosphate binding motif [ion binding]; other site 311424003133 beta-alpha-beta structure motif; other site 311424003134 NAD binding pocket [chemical binding]; other site 311424003135 Iron coordination center [ion binding]; other site 311424003136 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 311424003137 active site 311424003138 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 311424003139 homodimer interface [polypeptide binding]; other site 311424003140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424003141 catalytic residue [active] 311424003142 homoserine dehydrogenase; Provisional; Region: PRK06349 311424003143 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 311424003144 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 311424003145 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 311424003146 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 311424003147 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 311424003148 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 311424003149 active site 311424003150 Substrate binding site; other site 311424003151 Mg++ binding site; other site 311424003152 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 311424003153 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 311424003154 acetyl-CoA synthetase; Provisional; Region: PRK00174 311424003155 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 311424003156 active site 311424003157 CoA binding site [chemical binding]; other site 311424003158 acyl-activating enzyme (AAE) consensus motif; other site 311424003159 AMP binding site [chemical binding]; other site 311424003160 acetate binding site [chemical binding]; other site 311424003161 peptide chain release factor 1; Validated; Region: prfA; PRK00591 311424003162 PCRF domain; Region: PCRF; pfam03462 311424003163 RF-1 domain; Region: RF-1; pfam00472 311424003164 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 311424003165 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 311424003166 S-adenosylmethionine binding site [chemical binding]; other site 311424003167 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 311424003168 elongation factor G; Reviewed; Region: PRK12740 311424003169 G1 box; other site 311424003170 putative GEF interaction site [polypeptide binding]; other site 311424003171 GTP/Mg2+ binding site [chemical binding]; other site 311424003172 Switch I region; other site 311424003173 G2 box; other site 311424003174 G3 box; other site 311424003175 Switch II region; other site 311424003176 G4 box; other site 311424003177 G5 box; other site 311424003178 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 311424003179 Elongation Factor G, domain II; Region: EFG_II; pfam14492 311424003180 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 311424003181 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 311424003182 Integral membrane protein DUF95; Region: DUF95; pfam01944 311424003183 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 311424003184 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 311424003185 active site 311424003186 Int/Topo IB signature motif; other site 311424003187 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 311424003188 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 311424003189 GIY-YIG motif/motif A; other site 311424003190 active site 311424003191 catalytic site [active] 311424003192 putative DNA binding site [nucleotide binding]; other site 311424003193 metal binding site [ion binding]; metal-binding site 311424003194 UvrB/uvrC motif; Region: UVR; pfam02151 311424003195 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 311424003196 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 311424003197 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424003198 Coenzyme A binding pocket [chemical binding]; other site 311424003199 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 311424003200 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 311424003201 active site 311424003202 motif I; other site 311424003203 motif II; other site 311424003204 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 311424003205 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 311424003206 MutS domain I; Region: MutS_I; pfam01624 311424003207 MutS domain II; Region: MutS_II; pfam05188 311424003208 MutS domain III; Region: MutS_III; pfam05192 311424003209 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 311424003210 Walker A/P-loop; other site 311424003211 ATP binding site [chemical binding]; other site 311424003212 Q-loop/lid; other site 311424003213 ABC transporter signature motif; other site 311424003214 Walker B; other site 311424003215 D-loop; other site 311424003216 H-loop/switch region; other site 311424003217 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 311424003218 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311424003219 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311424003220 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 311424003221 Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950 311424003222 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 311424003223 active site 311424003224 dimerization interface [polypeptide binding]; other site 311424003225 DNA polymerase III subunit beta; Validated; Region: PRK05643 311424003226 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 311424003227 putative DNA binding surface [nucleotide binding]; other site 311424003228 dimer interface [polypeptide binding]; other site 311424003229 beta-clamp/clamp loader binding surface; other site 311424003230 beta-clamp/translesion DNA polymerase binding surface; other site 311424003231 Recombinase; Region: Recombinase; pfam07508 311424003232 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 311424003233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424003234 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 311424003235 dimerization interface [polypeptide binding]; other site 311424003236 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 311424003237 dimer interface [polypeptide binding]; other site 311424003238 phosphorylation site [posttranslational modification] 311424003239 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 311424003240 ATP binding site [chemical binding]; other site 311424003241 Mg2+ binding site [ion binding]; other site 311424003242 G-X-G motif; other site 311424003243 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424003244 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 311424003245 active site 311424003246 phosphorylation site [posttranslational modification] 311424003247 intermolecular recognition site; other site 311424003248 dimerization interface [polypeptide binding]; other site 311424003249 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 311424003250 DNA binding site [nucleotide binding] 311424003251 Beta/Gamma crystallin; Region: Crystall; cl02528 311424003252 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 311424003253 Domain of unknown function (DU1801); Region: DUF1801; cl17490 311424003254 Smr domain; Region: Smr; pfam01713 311424003255 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 311424003256 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 311424003257 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 311424003258 putative active site [active] 311424003259 putative substrate binding site [chemical binding]; other site 311424003260 putative cosubstrate binding site; other site 311424003261 catalytic site [active] 311424003262 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 311424003263 active site 311424003264 arsenical-resistance protein; Region: acr3; TIGR00832 311424003265 methionine sulfoxide reductase A; Provisional; Region: PRK14054 311424003266 methionine sulfoxide reductase B; Provisional; Region: PRK05508 311424003267 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 311424003268 TfoX N-terminal domain; Region: TfoX_N; pfam04993 311424003269 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 311424003270 dimerization interface [polypeptide binding]; other site 311424003271 putative DNA binding site [nucleotide binding]; other site 311424003272 putative Zn2+ binding site [ion binding]; other site 311424003273 Predicted integral membrane protein [Function unknown]; Region: COG5658 311424003274 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 311424003275 SdpI/YhfL protein family; Region: SdpI; pfam13630 311424003276 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 311424003277 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 311424003278 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 311424003279 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 311424003280 Walker A motif; other site 311424003281 ATP binding site [chemical binding]; other site 311424003282 Walker B motif; other site 311424003283 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 311424003284 heterotetramer interface [polypeptide binding]; other site 311424003285 active site pocket [active] 311424003286 cleavage site 311424003287 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 311424003288 nucleotide binding site [chemical binding]; other site 311424003289 N-acetyl-L-glutamate binding site [chemical binding]; other site 311424003290 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 311424003291 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 311424003292 inhibitor-cofactor binding pocket; inhibition site 311424003293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424003294 catalytic residue [active] 311424003295 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 311424003296 ANP binding site [chemical binding]; other site 311424003297 Substrate Binding Site II [chemical binding]; other site 311424003298 Substrate Binding Site I [chemical binding]; other site 311424003299 argininosuccinate lyase; Provisional; Region: PRK00855 311424003300 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 311424003301 active sites [active] 311424003302 tetramer interface [polypeptide binding]; other site 311424003303 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 311424003304 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 311424003305 DAK2 domain; Region: Dak2; pfam02734 311424003306 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 311424003307 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424003308 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424003309 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424003310 EDD domain protein, DegV family; Region: DegV; TIGR00762 311424003311 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 311424003312 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 311424003313 generic binding surface II; other site 311424003314 ssDNA binding site; other site 311424003315 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 311424003316 ATP binding site [chemical binding]; other site 311424003317 putative Mg++ binding site [ion binding]; other site 311424003318 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 311424003319 nucleotide binding region [chemical binding]; other site 311424003320 ATP-binding site [chemical binding]; other site 311424003321 SAD/SRA domain; Region: SAD_SRA; cl02620 311424003322 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 311424003323 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 311424003324 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 311424003325 active site 311424003326 HIGH motif; other site 311424003327 KMSK motif region; other site 311424003328 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 311424003329 tRNA binding surface [nucleotide binding]; other site 311424003330 anticodon binding site; other site 311424003331 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311424003332 AsnC family; Region: AsnC_trans_reg; pfam01037 311424003333 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 311424003334 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 311424003335 NAD binding site [chemical binding]; other site 311424003336 homotetramer interface [polypeptide binding]; other site 311424003337 homodimer interface [polypeptide binding]; other site 311424003338 substrate binding site [chemical binding]; other site 311424003339 active site 311424003340 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 311424003341 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 311424003342 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 311424003343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 311424003344 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 311424003345 NAD(P) binding site [chemical binding]; other site 311424003346 homotetramer interface [polypeptide binding]; other site 311424003347 homodimer interface [polypeptide binding]; other site 311424003348 active site 311424003349 transcription antitermination factor NusB; Region: nusB; TIGR01951 311424003350 putative RNA binding site [nucleotide binding]; other site 311424003351 acyl carrier protein; Provisional; Region: acpP; PRK00982 311424003352 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 311424003353 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 311424003354 B12 binding site [chemical binding]; other site 311424003355 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 311424003356 FeS/SAM binding site; other site 311424003357 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 311424003358 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 311424003359 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 311424003360 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 311424003361 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 311424003362 ATP binding site [chemical binding]; other site 311424003363 putative Mg++ binding site [ion binding]; other site 311424003364 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 311424003365 nucleotide binding region [chemical binding]; other site 311424003366 ATP-binding site [chemical binding]; other site 311424003367 TRCF domain; Region: TRCF; pfam03461 311424003368 gamma-glutamyl kinase; Provisional; Region: PRK05429 311424003369 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 311424003370 nucleotide binding site [chemical binding]; other site 311424003371 homotetrameric interface [polypeptide binding]; other site 311424003372 putative phosphate binding site [ion binding]; other site 311424003373 putative allosteric binding site; other site 311424003374 PUA domain; Region: PUA; pfam01472 311424003375 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311424003376 PDZ domain of trypsin-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 311424003377 protein binding site [polypeptide binding]; other site 311424003378 FlxA-like protein; Region: FlxA; pfam14282 311424003379 Trypsin; Region: Trypsin; pfam00089 311424003380 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311424003381 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 311424003382 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 311424003383 DNA binding residues [nucleotide binding] 311424003384 dimer interface [polypeptide binding]; other site 311424003385 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 311424003386 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 311424003387 putative catalytic cysteine [active] 311424003388 ribonuclease PH; Reviewed; Region: rph; PRK00173 311424003389 Ribonuclease PH; Region: RNase_PH_bact; cd11362 311424003390 hexamer interface [polypeptide binding]; other site 311424003391 active site 311424003392 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 311424003393 nudix motif; other site 311424003394 Competence-damaged protein; Region: CinA; pfam02464 311424003395 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 311424003396 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 311424003397 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 311424003398 dimer interface [polypeptide binding]; other site 311424003399 phosphorylation site [posttranslational modification] 311424003400 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 311424003401 ATP binding site [chemical binding]; other site 311424003402 Mg2+ binding site [ion binding]; other site 311424003403 G-X-G motif; other site 311424003404 Helix-turn-helix domain; Region: HTH_17; pfam12728 311424003405 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 311424003406 active site 311424003407 phosphorylation site [posttranslational modification] 311424003408 intermolecular recognition site; other site 311424003409 dimerization interface [polypeptide binding]; other site 311424003410 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 311424003411 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 311424003412 Probable zinc-binding domain; Region: zf-trcl; pfam13451 311424003413 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 311424003414 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 311424003415 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 311424003416 G1 box; other site 311424003417 putative GEF interaction site [polypeptide binding]; other site 311424003418 GTP/Mg2+ binding site [chemical binding]; other site 311424003419 Switch I region; other site 311424003420 G2 box; other site 311424003421 G3 box; other site 311424003422 Switch II region; other site 311424003423 G4 box; other site 311424003424 G5 box; other site 311424003425 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 311424003426 Elongation Factor G, domain II; Region: EFG_II; pfam14492 311424003427 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 311424003428 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 311424003429 metabolite-proton symporter; Region: 2A0106; TIGR00883 311424003430 putative substrate translocation pore; other site 311424003431 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 311424003432 Ligand Binding Site [chemical binding]; other site 311424003433 Protein of unknown function (DUF502); Region: DUF502; cl01107 311424003434 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 311424003435 Fasciclin domain; Region: Fasciclin; pfam02469 311424003436 Glycosyl transferase 4-like; Region: Glyco_trans_4_2; pfam13477 311424003437 Uncharacterized conserved protein [Function unknown]; Region: COG3422 311424003438 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311424003439 Putative lysophospholipase; Region: Hydrolase_4; cl19140 311424003440 recombination factor protein RarA; Reviewed; Region: PRK13342 311424003441 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 311424003442 Walker A motif; other site 311424003443 ATP binding site [chemical binding]; other site 311424003444 Walker B motif; other site 311424003445 arginine finger; other site 311424003446 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 311424003447 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 311424003448 putative ligand binding pocket/active site [active] 311424003449 putative metal binding site [ion binding]; other site 311424003450 hypothetical protein; Provisional; Region: PRK03881 311424003451 AMMECR1; Region: AMMECR1; pfam01871 311424003452 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 311424003453 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 311424003454 FeS/SAM binding site; other site 311424003455 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311424003456 EamA-like transporter family; Region: EamA; cl17759 311424003457 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 311424003458 YcxB-like protein; Region: YcxB; pfam14317 311424003459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424003460 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311424003461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 311424003462 Walker A/P-loop; other site 311424003463 Walker A/P-loop; other site 311424003464 ATP binding site [chemical binding]; other site 311424003465 ATP binding site [chemical binding]; other site 311424003466 Q-loop/lid; other site 311424003467 ABC transporter signature motif; other site 311424003468 Walker B; other site 311424003469 D-loop; other site 311424003470 H-loop/switch region; other site 311424003471 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 311424003472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424003473 Coenzyme A binding pocket [chemical binding]; other site 311424003474 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 311424003475 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 311424003476 CoA-binding site [chemical binding]; other site 311424003477 ATP-binding [chemical binding]; other site 311424003478 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 311424003479 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 311424003480 putative NAD(P) binding site [chemical binding]; other site 311424003481 active site 311424003482 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 311424003483 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 311424003484 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 311424003485 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 311424003486 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 311424003487 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311424003488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311424003489 Coenzyme A binding pocket [chemical binding]; other site 311424003490 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 311424003491 catalytic residues [active] 311424003492 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 311424003493 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 311424003494 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 311424003495 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 311424003496 Predicted membrane protein (DUF2178); Region: DUF2178; pfam09946 311424003497 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311424003498 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 311424003499 non-specific DNA binding site [nucleotide binding]; other site 311424003500 salt bridge; other site 311424003501 sequence-specific DNA binding site [nucleotide binding]; other site 311424003502 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 311424003503 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311424003504 Walker A/P-loop; other site 311424003505 ATP binding site [chemical binding]; other site 311424003506 Q-loop/lid; other site 311424003507 ABC transporter signature motif; other site 311424003508 Walker B; other site 311424003509 D-loop; other site 311424003510 H-loop/switch region; other site 311424003511 Acyltransferase family; Region: Acyl_transf_3; cl19154 311424003512 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311424003513 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; cl17220 311424003514 aspartate aminotransferase; Provisional; Region: PRK05764 311424003515 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 311424003516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424003517 homodimer interface [polypeptide binding]; other site 311424003518 catalytic residue [active] 311424003519 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 311424003520 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 311424003521 active site 311424003522 HIGH motif; other site 311424003523 dimer interface [polypeptide binding]; other site 311424003524 KMSKS motif; other site 311424003525 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 311424003526 Fe-S cluster binding site [ion binding]; other site 311424003527 substrate binding site [chemical binding]; other site 311424003528 catalytic site [active] 311424003529 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 311424003530 catalytic residue [active] 311424003531 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 311424003532 putative substrate binding site [chemical binding]; other site 311424003533 putative ATP binding site [chemical binding]; other site 311424003534 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 311424003535 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311424003536 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 311424003537 DNA binding residues [nucleotide binding] 311424003538 Helix-turn-helix domain; Region: HTH_17; pfam12728 311424003539 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424003540 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 311424003541 active site 311424003542 phosphorylation site [posttranslational modification] 311424003543 intermolecular recognition site; other site 311424003544 dimerization interface [polypeptide binding]; other site 311424003545 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 311424003546 DNA binding residues [nucleotide binding] 311424003547 dimerization interface [polypeptide binding]; other site 311424003548 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 311424003549 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 311424003550 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 311424003551 Walker A motif; other site 311424003552 ATP binding site [chemical binding]; other site 311424003553 Walker B motif; other site 311424003554 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 311424003555 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 311424003556 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 311424003557 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 311424003558 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 311424003559 PilX N-terminal; Region: PilX_N; pfam14341 311424003560 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 311424003561 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311424003562 Walker A motif; other site 311424003563 ATP binding site [chemical binding]; other site 311424003564 Walker B motif; other site 311424003565 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 311424003566 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 311424003567 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 311424003568 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 311424003569 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 311424003570 bifunctional mannosyl-3-phosphoglycerate synthase/mannosyl-3 phosphoglycerate phosphatase; Provisional; Region: PRK14502 311424003571 Mannosyl-3-phosphoglycerate synthase (osmo_MPGsynth); Region: Osmo_MPGsynth; pfam09488 311424003572 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 311424003573 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 311424003574 active site 311424003575 motif I; other site 311424003576 motif II; other site 311424003577 RDD family; Region: RDD; pfam06271 311424003578 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 311424003579 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 311424003580 active site 311424003581 HIGH motif; other site 311424003582 KMSKS motif; other site 311424003583 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 311424003584 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 311424003585 FeS/SAM binding site; other site 311424003586 metal-binding heat shock protein; Provisional; Region: PRK00016 311424003587 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 311424003588 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 311424003589 heterodimer interface [polypeptide binding]; other site 311424003590 active site 311424003591 FMN binding site [chemical binding]; other site 311424003592 homodimer interface [polypeptide binding]; other site 311424003593 substrate binding site [chemical binding]; other site 311424003594 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 311424003595 lipoprotein signal peptidase; Provisional; Region: PRK14784 311424003596 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 311424003597 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 311424003598 RNA binding surface [nucleotide binding]; other site 311424003599 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 311424003600 active site 311424003601 Predicted transcriptional regulator [Transcription]; Region: COG3432 311424003602 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 311424003603 Phospholipid methyltransferase; Region: PEMT; cl17370 311424003604 GH3 auxin-responsive promoter; Region: GH3; pfam03321 311424003605 indole-3-acetic acid-amido synthetase; Region: PLN02249 311424003606 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; cl09440 311424003607 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cd03493 311424003608 proximal heme binding site [chemical binding]; other site 311424003609 Iron-sulfur protein interface; other site 311424003610 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 311424003611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311424003612 metal binding site [ion binding]; metal-binding site 311424003613 active site 311424003614 I-site; other site 311424003615 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 311424003616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424003617 Zn2+ binding site [ion binding]; other site 311424003618 Mg2+ binding site [ion binding]; other site 311424003619 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 311424003620 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 311424003621 dimerization interface [polypeptide binding]; other site 311424003622 active site 311424003623 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 311424003624 L-aspartate oxidase; Provisional; Region: PRK06175 311424003625 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 311424003626 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 311424003627 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14336 311424003628 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 311424003629 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 311424003630 FeS/SAM binding site; other site 311424003631 TRAM domain; Region: TRAM; cl01282 311424003632 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311424003633 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 311424003634 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 311424003635 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 311424003636 DNA binding site [nucleotide binding] 311424003637 catalytic residue [active] 311424003638 H2TH interface [polypeptide binding]; other site 311424003639 putative catalytic residues [active] 311424003640 turnover-facilitating residue; other site 311424003641 intercalation triad [nucleotide binding]; other site 311424003642 8OG recognition residue [nucleotide binding]; other site 311424003643 putative reading head residues; other site 311424003644 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 311424003645 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 311424003646 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 311424003647 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 311424003648 active site 311424003649 DNA polymerase I; Provisional; Region: PRK05755 311424003650 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 311424003651 active site 311424003652 metal binding site 1 [ion binding]; metal-binding site 311424003653 putative 5' ssDNA interaction site; other site 311424003654 metal binding site 3; metal-binding site 311424003655 metal binding site 2 [ion binding]; metal-binding site 311424003656 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 311424003657 putative DNA binding site [nucleotide binding]; other site 311424003658 putative metal binding site [ion binding]; other site 311424003659 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 311424003660 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 311424003661 active site 311424003662 DNA binding site [nucleotide binding] 311424003663 catalytic site [active] 311424003664 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 311424003665 active site residue [active] 311424003666 ornithine carbamoyltransferase; Provisional; Region: PRK00779 311424003667 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 311424003668 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 311424003669 GTP-binding protein Der; Reviewed; Region: PRK00093 311424003670 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 311424003671 G1 box; other site 311424003672 GTP/Mg2+ binding site [chemical binding]; other site 311424003673 Switch I region; other site 311424003674 G2 box; other site 311424003675 Switch II region; other site 311424003676 G3 box; other site 311424003677 G4 box; other site 311424003678 G5 box; other site 311424003679 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 311424003680 G1 box; other site 311424003681 GTP/Mg2+ binding site [chemical binding]; other site 311424003682 Switch I region; other site 311424003683 G2 box; other site 311424003684 G3 box; other site 311424003685 Switch II region; other site 311424003686 G4 box; other site 311424003687 G5 box; other site 311424003688 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 311424003689 membrane protein; Provisional; Region: PRK14415 311424003690 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 311424003691 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 311424003692 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 311424003693 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 311424003694 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 311424003695 HSP70 interaction site [polypeptide binding]; other site 311424003696 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 311424003697 substrate binding site [polypeptide binding]; other site 311424003698 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 311424003699 Zn binding sites [ion binding]; other site 311424003700 dimer interface [polypeptide binding]; other site 311424003701 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 311424003702 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 311424003703 nucleotide binding site [chemical binding]; other site 311424003704 NEF interaction site [polypeptide binding]; other site 311424003705 SBD interface [polypeptide binding]; other site 311424003706 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 311424003707 dimer interface [polypeptide binding]; other site 311424003708 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 311424003709 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 311424003710 HrcA protein C terminal domain; Region: HrcA; pfam01628 311424003711 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 311424003712 Caspase domain; Region: Peptidase_C14; pfam00656 311424003713 RNase_H superfamily; Region: RNase_H_2; pfam13482 311424003714 active site 311424003715 substrate binding site [chemical binding]; other site 311424003716 catalytic site [active] 311424003717 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 311424003718 transcription termination factor Rho; Provisional; Region: rho; PRK09376 311424003719 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 311424003720 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 311424003721 RNA binding site [nucleotide binding]; other site 311424003722 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311424003723 Walker A motif; other site 311424003724 ATP binding site [chemical binding]; other site 311424003725 Walker B motif; other site 311424003726 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 311424003727 active site 311424003728 intersubunit interactions; other site 311424003729 catalytic residue [active] 311424003730 CTP synthetase; Validated; Region: pyrG; PRK05380 311424003731 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 311424003732 Catalytic site [active] 311424003733 active site 311424003734 UTP binding site [chemical binding]; other site 311424003735 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 311424003736 active site 311424003737 putative oxyanion hole; other site 311424003738 catalytic triad [active] 311424003739 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 311424003740 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 311424003741 HSP70 interaction site [polypeptide binding]; other site 311424003742 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 311424003743 substrate binding site [polypeptide binding]; other site 311424003744 dimer interface [polypeptide binding]; other site 311424003745 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 311424003746 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 311424003747 DNA binding residues [nucleotide binding] 311424003748 putative dimer interface [polypeptide binding]; other site 311424003749 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 311424003750 Clp amino terminal domain; Region: Clp_N; pfam02861 311424003751 Clp amino terminal domain; Region: Clp_N; pfam02861 311424003752 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 311424003753 Walker A motif; other site 311424003754 ATP binding site [chemical binding]; other site 311424003755 Walker B motif; other site 311424003756 arginine finger; other site 311424003757 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 311424003758 Walker A motif; other site 311424003759 ATP binding site [chemical binding]; other site 311424003760 Walker B motif; other site 311424003761 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 311424003762 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 311424003763 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 311424003764 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 311424003765 active site 311424003766 tetramer interface [polypeptide binding]; other site 311424003767 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424003768 active site 311424003769 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 311424003770 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 311424003771 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 311424003772 dimerization interface [polypeptide binding]; other site 311424003773 putative ATP binding site [chemical binding]; other site 311424003774 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 311424003775 Methyltransferase domain; Region: Methyltransf_31; pfam13847 311424003776 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 311424003777 S-adenosylmethionine binding site [chemical binding]; other site 311424003778 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 311424003779 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 311424003780 purine monophosphate binding site [chemical binding]; other site 311424003781 dimer interface [polypeptide binding]; other site 311424003782 putative catalytic residues [active] 311424003783 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 311424003784 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 311424003785 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 311424003786 active site 311424003787 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 311424003788 arsenite S-adenosylmethyltransferase; Reviewed; Region: arsM; PRK11873 311424003789 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 311424003790 S-adenosylmethionine binding site [chemical binding]; other site 311424003791 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 311424003792 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 311424003793 Ligand Binding Site [chemical binding]; other site 311424003794 TilS substrate C-terminal domain; Region: TilS_C; smart00977 311424003795 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 311424003796 catalytic core [active] 311424003797 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 311424003798 Peptidase family M48; Region: Peptidase_M48; cl12018 311424003799 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 311424003800 Domain of unknown function DUF21; Region: DUF21; pfam01595 311424003801 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 311424003802 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 311424003803 Transporter associated domain; Region: CorC_HlyC; smart01091 311424003804 UGMP family protein; Validated; Region: PRK09604 311424003805 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 311424003806 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 311424003807 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 311424003808 oligomerisation interface [polypeptide binding]; other site 311424003809 mobile loop; other site 311424003810 roof hairpin; other site 311424003811 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 311424003812 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 311424003813 ring oligomerisation interface [polypeptide binding]; other site 311424003814 ATP/Mg binding site [chemical binding]; other site 311424003815 stacking interactions; other site 311424003816 hinge regions; other site 311424003817 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 311424003818 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 311424003819 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 311424003820 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 311424003821 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311424003822 Acylphosphatase; Region: Acylphosphatase; pfam00708 311424003823 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 311424003824 HypF finger; Region: zf-HYPF; pfam07503 311424003825 HypF finger; Region: zf-HYPF; pfam07503 311424003826 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 311424003827 HupF/HypC family; Region: HupF_HypC; pfam01455 311424003828 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 311424003829 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 311424003830 dimerization interface [polypeptide binding]; other site 311424003831 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 311424003832 ATP binding site [chemical binding]; other site 311424003833 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311424003834 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311424003835 glyceraldehyde-3-phosphate dehydrogenase B; Region: PLN02237 311424003836 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 311424003837 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 311424003838 DNA binding residues [nucleotide binding] 311424003839 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 311424003840 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 311424003841 putative hydrophobic ligand binding site [chemical binding]; other site 311424003842 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 311424003843 putative active site pocket [active] 311424003844 dimerization interface [polypeptide binding]; other site 311424003845 putative catalytic residue [active] 311424003846 Nuclear pore complex assembly; Region: ELYS; pfam13934 311424003847 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 311424003848 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 311424003849 5S rRNA interface [nucleotide binding]; other site 311424003850 CTC domain interface [polypeptide binding]; other site 311424003851 L16 interface [polypeptide binding]; other site 311424003852 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 311424003853 Amidohydrolase; Region: Amidohydro_2; pfam04909 311424003854 active site 311424003855 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 311424003856 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 311424003857 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 311424003858 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 311424003859 Protein of unknown function (DUF1451); Region: DUF1451; cl19727 311424003860 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311424003861 active site 311424003862 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 311424003863 30S subunit binding site; other site 311424003864 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 311424003865 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 311424003866 DNA binding site [nucleotide binding] 311424003867 active site 311424003868 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 311424003869 hypothetical protein; Reviewed; Region: PRK00024 311424003870 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 311424003871 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 311424003872 helix-hairpin-helix signature motif; other site 311424003873 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 311424003874 MPN+ (JAMM) motif; other site 311424003875 Zinc-binding site [ion binding]; other site 311424003876 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 311424003877 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 311424003878 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 311424003879 active site 311424003880 PHP Thumb interface [polypeptide binding]; other site 311424003881 metal binding site [ion binding]; metal-binding site 311424003882 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 311424003883 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 311424003884 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 311424003885 generic binding surface II; other site 311424003886 generic binding surface I; other site 311424003887 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 311424003888 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 311424003889 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 311424003890 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 311424003891 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 311424003892 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 311424003893 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 311424003894 glutamine binding [chemical binding]; other site 311424003895 catalytic triad [active] 311424003896 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 311424003897 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 311424003898 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 311424003899 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 311424003900 active site 311424003901 ribulose/triose binding site [chemical binding]; other site 311424003902 phosphate binding site [ion binding]; other site 311424003903 substrate (anthranilate) binding pocket [chemical binding]; other site 311424003904 product (indole) binding pocket [chemical binding]; other site 311424003905 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 311424003906 active site 311424003907 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 311424003908 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 311424003909 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 311424003910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311424003911 catalytic residue [active] 311424003912 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 311424003913 substrate binding site [chemical binding]; other site 311424003914 active site 311424003915 catalytic residues [active] 311424003916 heterodimer interface [polypeptide binding]; other site 311424003917 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424003918 reductive dehalogenase; Region: RDH; TIGR02486 311424003919 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424003920 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424003921 reductive dehalogenase; Region: RDH; TIGR02486 311424003922 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424003923 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424003924 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; cl17220 311424003925 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 311424003926 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311424003927 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311424003928 Walker A/P-loop; other site 311424003929 ATP binding site [chemical binding]; other site 311424003930 Q-loop/lid; other site 311424003931 ABC transporter signature motif; other site 311424003932 Walker B; other site 311424003933 D-loop; other site 311424003934 H-loop/switch region; other site 311424003935 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311424003936 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311424003937 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311424003938 Walker A/P-loop; other site 311424003939 ATP binding site [chemical binding]; other site 311424003940 Q-loop/lid; other site 311424003941 ABC transporter signature motif; other site 311424003942 Walker B; other site 311424003943 D-loop; other site 311424003944 H-loop/switch region; other site 311424003945 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311424003946 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311424003947 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311424003948 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 311424003949 dimer interface [polypeptide binding]; other site 311424003950 conserved gate region; other site 311424003951 putative PBP binding loops; other site 311424003952 ABC-ATPase subunit interface; other site 311424003953 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311424003954 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 311424003955 dimer interface [polypeptide binding]; other site 311424003956 conserved gate region; other site 311424003957 putative PBP binding loops; other site 311424003958 ABC-ATPase subunit interface; other site 311424003959 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311424003960 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 311424003961 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 311424003962 S-adenosylmethionine binding site [chemical binding]; other site 311424003963 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424003964 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; cl17220 311424003965 dimerization interface [polypeptide binding]; other site 311424003966 putative Zn2+ binding site [ion binding]; other site 311424003967 putative DNA binding site [nucleotide binding]; other site 311424003968 camphor resistance protein CrcB; Provisional; Region: PRK14212 311424003969 Predicted transcriptional regulator [Transcription]; Region: COG1497 311424003970 MarR family; Region: MarR_2; pfam12802 311424003971 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 311424003972 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 311424003973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311424003974 putative substrate translocation pore; other site 311424003975 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 311424003976 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 311424003977 G1 box; other site 311424003978 GTP/Mg2+ binding site [chemical binding]; other site 311424003979 Switch I region; other site 311424003980 G2 box; other site 311424003981 G3 box; other site 311424003982 Switch II region; other site 311424003983 G4 box; other site 311424003984 G5 box; other site 311424003985 Nucleoside recognition; Region: Gate; pfam07670 311424003986 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 311424003987 Nucleoside recognition; Region: Gate; pfam07670 311424003988 FeoA domain; Region: FeoA; pfam04023 311424003989 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 311424003990 metal binding site 2 [ion binding]; metal-binding site 311424003991 putative DNA binding helix; other site 311424003992 metal binding site 1 [ion binding]; metal-binding site 311424003993 dimer interface [polypeptide binding]; other site 311424003994 structural Zn2+ binding site [ion binding]; other site 311424003995 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 311424003996 SmpB-tmRNA interface; other site 311424003997 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311424003998 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 311424003999 catalytic residues [active] 311424004000 catalytic nucleophile [active] 311424004001 Recombinase; Region: Recombinase; pfam07508 311424004002 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 311424004003 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311424004004 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 311424004005 catalytic residues [active] 311424004006 NTPase; Region: NTPase_1; cl17478 311424004007 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 311424004008 ParB-like nuclease domain; Region: ParB; smart00470 311424004009 CHC2 zinc finger; Region: zf-CHC2; cl17510 311424004010 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 311424004011 active site 311424004012 metal binding site [ion binding]; metal-binding site 311424004013 interdomain interaction site; other site 311424004014 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 311424004015 Winged helix-turn helix; Region: HTH_29; pfam13551 311424004016 Rubredoxin [Energy production and conversion]; Region: COG1773 311424004017 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 311424004018 iron binding site [ion binding]; other site 311424004019 FMN-binding domain; Region: FMN_bind; pfam04205 311424004020 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424004021 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424004022 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004023 reductive dehalogenase; Region: RDH; TIGR02486 311424004024 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004025 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311424004026 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 311424004027 catalytic residues [active] 311424004028 catalytic nucleophile [active] 311424004029 Recombinase; Region: Recombinase; pfam07508 311424004030 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 311424004031 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311424004032 Resolvase, N terminal domain; Region: Resolvase; smart00857 311424004033 catalytic residues [active] 311424004034 catalytic nucleophile [active] 311424004035 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 311424004036 ParB-like nuclease domain; Region: ParB; smart00470 311424004037 potential RNA location (tRNA-other) that overlaps protein (DNA modification protein [Dehalococcoides sp. VS]) 311424004038 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 311424004039 active site 311424004040 metal binding site [ion binding]; metal-binding site 311424004041 interdomain interaction site; other site 311424004042 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 311424004043 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 311424004044 Active Sites [active] 311424004045 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 311424004046 DNA methylase; Region: N6_N4_Mtase; cl17433 311424004047 Methyltransferase domain; Region: Methyltransf_26; pfam13659 311424004048 MvaI/BcnI restriction endonuclease family; Region: MvaI_BcnI; pfam15515 311424004049 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 311424004050 ATP binding site [chemical binding]; other site 311424004051 putative Mg++ binding site [ion binding]; other site 311424004052 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 311424004053 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004054 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424004055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311424004056 Transposase; Region: HTH_Tnp_1; pfam01527 311424004057 putative transposase OrfB; Reviewed; Region: PHA02517 311424004058 HTH-like domain; Region: HTH_21; pfam13276 311424004059 Integrase core domain; Region: rve; pfam00665 311424004060 Integrase core domain; Region: rve_3; pfam13683 311424004061 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004062 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 311424004063 active site 311424004064 phosphorylation site [posttranslational modification] 311424004065 intermolecular recognition site; other site 311424004066 dimerization interface [polypeptide binding]; other site 311424004067 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 311424004068 DNA binding site [nucleotide binding] 311424004069 PAS domain S-box; Region: sensory_box; TIGR00229 311424004070 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 311424004071 putative active site [active] 311424004072 heme pocket [chemical binding]; other site 311424004073 PAS domain; Region: PAS_9; pfam13426 311424004074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424004075 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 311424004076 dimer interface [polypeptide binding]; other site 311424004077 phosphorylation site [posttranslational modification] 311424004078 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 311424004079 ATP binding site [chemical binding]; other site 311424004080 Mg2+ binding site [ion binding]; other site 311424004081 G-X-G motif; other site 311424004082 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424004083 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004084 reductive dehalogenase; Region: RDH; TIGR02486 311424004085 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004086 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004087 reductive dehalogenase; Region: RDH; TIGR02486 311424004088 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004089 PAS domain; Region: PAS_9; pfam13426 311424004090 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 311424004091 putative active site [active] 311424004092 heme pocket [chemical binding]; other site 311424004093 Histidine kinase; Region: HisKA_3; pfam07730 311424004094 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 311424004095 ATP binding site [chemical binding]; other site 311424004096 Mg2+ binding site [ion binding]; other site 311424004097 G-X-G motif; other site 311424004098 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424004099 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 311424004100 active site 311424004101 phosphorylation site [posttranslational modification] 311424004102 intermolecular recognition site; other site 311424004103 dimerization interface [polypeptide binding]; other site 311424004104 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 311424004105 DNA binding residues [nucleotide binding] 311424004106 dimerization interface [polypeptide binding]; other site 311424004107 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004108 reductive dehalogenase; Region: RDH; TIGR02486 311424004109 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004110 PAS domain S-box; Region: sensory_box; TIGR00229 311424004111 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 311424004112 putative active site [active] 311424004113 heme pocket [chemical binding]; other site 311424004114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424004115 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 311424004116 dimer interface [polypeptide binding]; other site 311424004117 phosphorylation site [posttranslational modification] 311424004118 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 311424004119 ATP binding site [chemical binding]; other site 311424004120 Mg2+ binding site [ion binding]; other site 311424004121 G-X-G motif; other site 311424004122 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004123 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 311424004124 active site 311424004125 phosphorylation site [posttranslational modification] 311424004126 intermolecular recognition site; other site 311424004127 dimerization interface [polypeptide binding]; other site 311424004128 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 311424004129 DNA binding site [nucleotide binding] 311424004130 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424004131 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004132 reductive dehalogenase; Region: RDH; TIGR02486 311424004133 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004134 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004135 MarR family; Region: MarR_2; pfam12802 311424004136 Putative serine esterase (DUF676); Region: DUF676; pfam05057 311424004137 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 311424004138 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004139 reductive dehalogenase; Region: RDH; TIGR02486 311424004140 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004141 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004142 reductive dehalogenase; Region: RDH; TIGR02486 311424004143 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004144 transcriptional regulator PhoB; Provisional; Region: PRK10161 311424004145 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 311424004146 active site 311424004147 phosphorylation site [posttranslational modification] 311424004148 intermolecular recognition site; other site 311424004149 dimerization interface [polypeptide binding]; other site 311424004150 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 311424004151 DNA binding site [nucleotide binding] 311424004152 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 311424004153 Two component regulator propeller; Region: Reg_prop; pfam07494 311424004154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424004155 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 311424004156 dimer interface [polypeptide binding]; other site 311424004157 phosphorylation site [posttranslational modification] 311424004158 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 311424004159 ATP binding site [chemical binding]; other site 311424004160 Mg2+ binding site [ion binding]; other site 311424004161 G-X-G motif; other site 311424004162 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311424004163 Transposase; Region: HTH_Tnp_1; pfam01527 311424004164 HTH-like domain; Region: HTH_21; pfam13276 311424004165 Integrase core domain; Region: rve; pfam00665 311424004166 Integrase core domain; Region: rve_3; pfam13683 311424004167 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 311424004168 Ligand Binding Site [chemical binding]; other site 311424004169 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424004170 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004171 reductive dehalogenase; Region: RDH; TIGR02486 311424004172 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004173 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 311424004174 FeS/SAM binding site; other site 311424004175 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424004176 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 311424004177 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 311424004178 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 311424004179 FeS/SAM binding site; other site 311424004180 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004181 reductive dehalogenase; Region: RDH; TIGR02486 311424004182 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004183 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004184 reductive dehalogenase; Region: RDH; TIGR02486 311424004185 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004186 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004187 reductive dehalogenase; Region: RDH; TIGR02486 311424004188 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004189 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004190 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004191 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424004192 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 311424004193 reductive dehalogenase; Region: RDH; TIGR02486 311424004194 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004195 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004196 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 311424004197 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 311424004198 DNA binding residues [nucleotide binding] 311424004199 dimer interface [polypeptide binding]; other site 311424004200 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004201 reductive dehalogenase; Region: RDH; TIGR02486 311424004202 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004203 PAS domain; Region: PAS_9; pfam13426 311424004204 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 311424004205 putative active site [active] 311424004206 heme pocket [chemical binding]; other site 311424004207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424004208 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 311424004209 dimer interface [polypeptide binding]; other site 311424004210 phosphorylation site [posttranslational modification] 311424004211 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 311424004212 ATP binding site [chemical binding]; other site 311424004213 Mg2+ binding site [ion binding]; other site 311424004214 G-X-G motif; other site 311424004215 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004216 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 311424004217 active site 311424004218 phosphorylation site [posttranslational modification] 311424004219 intermolecular recognition site; other site 311424004220 dimerization interface [polypeptide binding]; other site 311424004221 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 311424004222 DNA binding site [nucleotide binding] 311424004223 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 311424004224 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 311424004225 reductive dehalogenase; Region: RDH; TIGR02486 311424004226 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004227 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004228 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004229 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; cl17220 311424004230 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 311424004231 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004232 reductive dehalogenase; Region: RDH; TIGR02486 311424004233 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004234 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004235 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; cl17220 311424004236 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 311424004237 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424004238 DNA binding residues [nucleotide binding] 311424004239 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 311424004240 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 311424004241 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311424004242 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 311424004243 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004244 reductive dehalogenase; Region: RDH; TIGR02486 311424004245 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004246 PAS domain S-box; Region: sensory_box; TIGR00229 311424004247 PAS domain; Region: PAS; smart00091 311424004248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311424004249 Histidine kinase; Region: HisKA_3; pfam07730 311424004250 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 311424004251 ATP binding site [chemical binding]; other site 311424004252 Mg2+ binding site [ion binding]; other site 311424004253 G-X-G motif; other site 311424004254 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311424004255 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 311424004256 active site 311424004257 phosphorylation site [posttranslational modification] 311424004258 intermolecular recognition site; other site 311424004259 dimerization interface [polypeptide binding]; other site 311424004260 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 311424004261 DNA binding residues [nucleotide binding] 311424004262 dimerization interface [polypeptide binding]; other site 311424004263 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424004264 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004265 reductive dehalogenase; Region: RDH; TIGR02486 311424004266 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004267 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004268 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; cl17220 311424004269 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004270 reductive dehalogenase; Region: RDH; TIGR02486 311424004271 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004273 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 311424004274 active site 311424004275 phosphorylation site [posttranslational modification] 311424004276 dimerization interface [polypeptide binding]; other site 311424004277 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 311424004278 DNA binding site [nucleotide binding] 311424004279 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004280 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 311424004281 active site 311424004282 phosphorylation site [posttranslational modification] 311424004283 intermolecular recognition site; other site 311424004284 dimerization interface [polypeptide binding]; other site 311424004285 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 311424004286 DNA binding site [nucleotide binding] 311424004287 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004288 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; cl17220 311424004289 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004290 reductive dehalogenase; Region: RDH; TIGR02486 311424004291 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004292 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 311424004293 Ligand Binding Site [chemical binding]; other site 311424004294 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 311424004295 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004296 reductive dehalogenase; Region: RDH; TIGR02486 311424004297 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004298 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004299 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; cl17220 311424004300 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 311424004301 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004302 reductive dehalogenase; Region: RDH; TIGR02486 311424004303 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004305 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 311424004306 active site 311424004307 phosphorylation site [posttranslational modification] 311424004308 intermolecular recognition site; other site 311424004309 dimerization interface [polypeptide binding]; other site 311424004310 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 311424004311 DNA binding site [nucleotide binding] 311424004312 PAS domain; Region: PAS; smart00091 311424004313 PAS domain; Region: PAS_9; pfam13426 311424004314 PAS domain S-box; Region: sensory_box; TIGR00229 311424004315 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 311424004316 putative active site [active] 311424004317 heme pocket [chemical binding]; other site 311424004318 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311424004319 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 311424004320 dimer interface [polypeptide binding]; other site 311424004321 phosphorylation site [posttranslational modification] 311424004322 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 311424004323 ATP binding site [chemical binding]; other site 311424004324 Mg2+ binding site [ion binding]; other site 311424004325 G-X-G motif; other site 311424004326 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 311424004327 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424004328 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 311424004329 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424004330 putative active site [active] 311424004331 heme pocket [chemical binding]; other site 311424004332 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 311424004333 putative active site [active] 311424004334 heme pocket [chemical binding]; other site 311424004335 PAS domain S-box; Region: sensory_box; TIGR00229 311424004336 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 311424004337 putative active site [active] 311424004338 heme pocket [chemical binding]; other site 311424004339 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 311424004340 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 311424004341 putative active site [active] 311424004342 heme pocket [chemical binding]; other site 311424004343 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 311424004344 dimer interface [polypeptide binding]; other site 311424004345 phosphorylation site [posttranslational modification] 311424004346 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 311424004347 ATP binding site [chemical binding]; other site 311424004348 Mg2+ binding site [ion binding]; other site 311424004349 G-X-G motif; other site 311424004350 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 311424004351 active site 311424004352 phosphorylation site [posttranslational modification] 311424004353 intermolecular recognition site; other site 311424004354 dimerization interface [polypeptide binding]; other site 311424004355 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 311424004356 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004357 reductive dehalogenase; Region: RDH; TIGR02486 311424004358 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004359 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004360 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; cl17220 311424004361 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004362 reductive dehalogenase; Region: RDH; TIGR02486 311424004363 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004364 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 311424004365 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 311424004366 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004367 PAS domain S-box; Region: sensory_box; TIGR00229 311424004368 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 311424004369 putative active site [active] 311424004370 heme pocket [chemical binding]; other site 311424004371 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 311424004372 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424004373 putative active site [active] 311424004374 heme pocket [chemical binding]; other site 311424004375 PAS domain S-box; Region: sensory_box; TIGR00229 311424004376 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 311424004377 putative active site [active] 311424004378 heme pocket [chemical binding]; other site 311424004379 PAS domain S-box; Region: sensory_box; TIGR00229 311424004380 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 311424004381 putative active site [active] 311424004382 heme pocket [chemical binding]; other site 311424004383 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424004384 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 311424004385 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 311424004386 putative active site [active] 311424004387 heme pocket [chemical binding]; other site 311424004388 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 311424004389 putative active site [active] 311424004390 heme pocket [chemical binding]; other site 311424004391 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 311424004392 dimer interface [polypeptide binding]; other site 311424004393 phosphorylation site [posttranslational modification] 311424004394 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 311424004395 ATP binding site [chemical binding]; other site 311424004396 Mg2+ binding site [ion binding]; other site 311424004397 G-X-G motif; other site 311424004398 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 311424004399 active site 311424004400 phosphorylation site [posttranslational modification] 311424004401 intermolecular recognition site; other site 311424004402 dimerization interface [polypeptide binding]; other site 311424004403 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 311424004404 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 311424004405 active site 311424004406 phosphorylation site [posttranslational modification] 311424004407 intermolecular recognition site; other site 311424004408 dimerization interface [polypeptide binding]; other site 311424004409 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424004410 Zn2+ binding site [ion binding]; other site 311424004411 Mg2+ binding site [ion binding]; other site 311424004412 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 311424004413 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 311424004414 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 311424004415 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 311424004416 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311424004417 putative active site [active] 311424004418 heme pocket [chemical binding]; other site 311424004419 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 311424004420 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 311424004421 putative active site [active] 311424004422 heme pocket [chemical binding]; other site 311424004423 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 311424004424 dimer interface [polypeptide binding]; other site 311424004425 phosphorylation site [posttranslational modification] 311424004426 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 311424004427 ATP binding site [chemical binding]; other site 311424004428 Mg2+ binding site [ion binding]; other site 311424004429 G-X-G motif; other site 311424004430 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 311424004431 active site 311424004432 phosphorylation site [posttranslational modification] 311424004433 intermolecular recognition site; other site 311424004434 dimerization interface [polypeptide binding]; other site 311424004435 DOMON-like domain of copper-dependent monooxygenases and related proteins; Region: DOMON_DOH; cd09631 311424004436 putative ligand binding site [chemical binding]; other site 311424004437 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 311424004438 DNA binding residues [nucleotide binding] 311424004439 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 311424004440 dimer interface [polypeptide binding]; other site 311424004441 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311424004442 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311424004443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311424004444 Walker A/P-loop; other site 311424004445 ATP binding site [chemical binding]; other site 311424004446 Q-loop/lid; other site 311424004447 ABC transporter signature motif; other site 311424004448 Walker B; other site 311424004449 D-loop; other site 311424004450 H-loop/switch region; other site 311424004451 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 311424004452 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 311424004453 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 311424004454 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311424004455 MMPL family; Region: MMPL; cl14618 311424004456 MMPL family; Region: MMPL; cl14618 311424004457 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004458 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; cl17220 311424004459 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 311424004460 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004461 reductive dehalogenase; Region: RDH; TIGR02486 311424004462 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004463 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004464 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; cl17220 311424004465 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 311424004466 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 311424004467 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311424004468 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 311424004469 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 311424004470 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 311424004471 putative substrate translocation pore; other site 311424004472 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004473 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; cl17220 311424004474 putative DNA binding site [nucleotide binding]; other site 311424004475 putative Zn2+ binding site [ion binding]; other site 311424004476 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 311424004477 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004478 reductive dehalogenase; Region: RDH; TIGR02486 311424004479 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004480 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311424004481 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; cl17220 311424004482 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004483 reductive dehalogenase; Region: RDH; TIGR02486 311424004484 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004485 PAS domain; Region: PAS; smart00091 311424004486 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 311424004487 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 311424004488 putative active site [active] 311424004489 heme pocket [chemical binding]; other site 311424004490 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 311424004491 dimer interface [polypeptide binding]; other site 311424004492 phosphorylation site [posttranslational modification] 311424004493 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 311424004494 ATP binding site [chemical binding]; other site 311424004495 Mg2+ binding site [ion binding]; other site 311424004496 G-X-G motif; other site 311424004497 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311424004498 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 311424004499 active site 311424004500 phosphorylation site [posttranslational modification] 311424004501 intermolecular recognition site; other site 311424004502 dimerization interface [polypeptide binding]; other site 311424004503 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 311424004504 DNA binding site [nucleotide binding] 311424004505 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 311424004506 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 311424004507 reductive dehalogenase; Region: RDH; TIGR02486 311424004508 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 311424004509 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 311424004510 Prephenate dehydratase; Region: PDT; pfam00800 311424004511 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 311424004512 putative L-Phe binding site [chemical binding]; other site 311424004513 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 311424004514 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 311424004515 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 311424004516 GatB domain; Region: GatB_Yqey; smart00845 311424004517 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 311424004518 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 311424004519 DNA binding residues [nucleotide binding] 311424004520 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 311424004521 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 311424004522 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 311424004523 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 311424004524 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl19174 311424004525 hydrogenase membrane subunit; Validated; Region: PRK08676 311424004526 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311424004527 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 311424004528 NADH dehydrogenase; Region: NADHdh; cl00469 311424004529 hydrogenase membrane subunit; Validated; Region: PRK08667 311424004530 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311424004531 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 311424004532 substrate binding site [chemical binding]; other site 311424004533 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 311424004534 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 311424004535 Mechanosensitive ion channel; Region: MS_channel; pfam00924 311424004536 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311424004537 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311424004538 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 311424004539 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 311424004540 putative NADP binding site [chemical binding]; other site 311424004541 putative substrate binding site [chemical binding]; other site 311424004542 active site 311424004543 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 311424004544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311424004545 NAD(P) binding site [chemical binding]; other site 311424004546 active site 311424004547 peroxiredoxin; Provisional; Region: PRK13189 311424004548 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 311424004549 dimer interface [polypeptide binding]; other site 311424004550 decamer (pentamer of dimers) interface [polypeptide binding]; other site 311424004551 catalytic triad [active] 311424004552 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; cl17220 311424004553 putative DNA binding site [nucleotide binding]; other site 311424004554 putative Zn2+ binding site [ion binding]; other site 311424004555 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 311424004556 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 311424004557 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 311424004558 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 311424004559 Int/Topo IB signature motif; other site 311424004560 DNA methylase; Region: N6_N4_Mtase; pfam01555 311424004561 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 311424004562 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 311424004563 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 311424004564 Peptidase family M48; Region: Peptidase_M48; cl12018 311424004565 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 311424004566 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 311424004567 trimer interface [polypeptide binding]; other site 311424004568 active site 311424004569 substrate binding site [chemical binding]; other site 311424004570 CoA binding site [chemical binding]; other site 311424004571 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 311424004572 Quinolinate synthetase A protein; Region: NadA; pfam02445 311424004573 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 311424004574 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 311424004575 S-adenosylmethionine binding site [chemical binding]; other site 311424004576 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 311424004577 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 311424004578 dimerization interface [polypeptide binding]; other site 311424004579 putative ATP binding site [chemical binding]; other site 311424004580 Predicted transcriptional regulator [Transcription]; Region: COG1959 311424004581 Rrf2 family protein; Region: rrf2_super; TIGR00738 311424004582 ApbE family; Region: ApbE; pfam02424 311424004583 FMN-binding domain; Region: FMN_bind; pfam04205 311424004584 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 311424004585 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424004586 FMN-binding domain; Region: FMN_bind; pfam04205 311424004587 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 311424004588 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424004589 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311424004590 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 311424004591 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 311424004592 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 311424004593 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 311424004594 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 311424004595 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 311424004596 substrate binding pocket [chemical binding]; other site 311424004597 dimer interface [polypeptide binding]; other site 311424004598 inhibitor binding site; inhibition site 311424004599 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 311424004600 catalytic center binding site [active] 311424004601 ATP binding site [chemical binding]; other site 311424004602 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 311424004603 active site 311424004604 recombinase A; Provisional; Region: recA; PRK09354 311424004605 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 311424004606 hexamer interface [polypeptide binding]; other site 311424004607 Walker A motif; other site 311424004608 ATP binding site [chemical binding]; other site 311424004609 Walker B motif; other site 311424004610 recombination regulator RecX; Reviewed; Region: recX; PRK00117 311424004611 ribonuclease Y; Region: RNase_Y; TIGR03319 311424004612 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 311424004613 KH domain; Region: KH_1; pfam00013 311424004614 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311424004615 Zn2+ binding site [ion binding]; other site 311424004616 Mg2+ binding site [ion binding]; other site 311424004617 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 311424004618 putative active site [active] 311424004619 metal binding site [ion binding]; metal-binding site 311424004620 homodimer binding site [polypeptide binding]; other site 311424004621 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 311424004622 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 311424004623 active site 311424004624 membrane protein; Provisional; Region: PRK14417 311424004625 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 311424004626 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 311424004627 minor groove reading motif; other site 311424004628 helix-hairpin-helix signature motif; other site 311424004629 substrate binding pocket [chemical binding]; other site 311424004630 active site 311424004631 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 311424004632 homodimer interaction site [polypeptide binding]; other site 311424004633 cofactor binding site; other site 311424004634 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 311424004635 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 311424004636 active site 311424004637 catalytic residues [active] 311424004638 metal binding site [ion binding]; metal-binding site 311424004639 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 311424004640 nucleotide binding site/active site [active] 311424004641 HIT family signature motif; other site 311424004642 catalytic residue [active] 311424004643 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 311424004644 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 311424004645 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 311424004646 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 311424004647 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311424004648 Walker A/P-loop; other site 311424004649 ATP binding site [chemical binding]; other site 311424004650 Q-loop/lid; other site 311424004651 ABC transporter signature motif; other site 311424004652 Walker B; other site 311424004653 D-loop; other site 311424004654 H-loop/switch region; other site 311424004655 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 311424004656 Acyltransferase family; Region: Acyl_transf_3; cl19154 311424004657 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 311424004658 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 311424004659 trimer interface [polypeptide binding]; other site 311424004660 putative Zn binding site [ion binding]; other site 311424004661 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 311424004662 non-heme iron binding site [ion binding]; other site 311424004663 dimer interface [polypeptide binding]; other site 311424004664 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 311424004665 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 311424004666 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 311424004667 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 311424004668 putative cation:proton antiport protein; Provisional; Region: PRK10669 311424004669 TrkA-N domain; Region: TrkA_N; pfam02254 311424004670 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 311424004671 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 311424004672 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 311424004673 B12 binding site [chemical binding]; other site 311424004674 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 311424004675 FeS/SAM binding site; other site 311424004676 DNA gyrase subunit A; Validated; Region: PRK05560 311424004677 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 311424004678 CAP-like domain; other site 311424004679 active site 311424004680 primary dimer interface [polypeptide binding]; other site 311424004681 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311424004682 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311424004683 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311424004684 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311424004685 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311424004686 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 311424004687 binding surface 311424004688 Tetratricopeptide repeat; Region: TPR_16; pfam13432 311424004689 TPR motif; other site 311424004690 NifU-like domain; Region: NifU; cl00484 311424004691 aspartate kinase; Reviewed; Region: PRK06635 311424004692 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 311424004693 putative nucleotide binding site [chemical binding]; other site 311424004694 putative catalytic residues [active] 311424004695 putative Mg ion binding site [ion binding]; other site 311424004696 putative aspartate binding site [chemical binding]; other site 311424004697 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 311424004698 putative allosteric regulatory site; other site 311424004699 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 311424004700 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 311424004701 proposed homoserine kinase; Region: hyp_Hser_kinase; TIGR02535 311424004702 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 311424004703 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 311424004704 homodimer interface [polypeptide binding]; other site 311424004705 metal binding site [ion binding]; metal-binding site 311424004706 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 311424004707 homodimer interface [polypeptide binding]; other site 311424004708 active site 311424004709 putative chemical substrate binding site [chemical binding]; other site 311424004710 metal binding site [ion binding]; metal-binding site 311424004711 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 311424004712 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 311424004713 LexA repressor; Validated; Region: PRK00215 311424004714 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 311424004715 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 311424004716 Catalytic site [active] 311424004717 L-fuculose phosphate aldolase; Provisional; Region: PRK08660 311424004718 intersubunit interface [polypeptide binding]; other site 311424004719 active site 311424004720 Zn2+ binding site [ion binding]; other site 311424004721 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 311424004722 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 311424004723 putative active site [active] 311424004724 substrate binding site [chemical binding]; other site 311424004725 putative cosubstrate binding site; other site 311424004726 catalytic site [active] 311424004727 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 311424004728 substrate binding site [chemical binding]; other site