-- dump date 20120504_155030 -- class Genbank::misc_feature -- table misc_feature_note -- id note 93059000001 DNA polymerase III subunit beta; Validated; Region: PRK05643 93059000002 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 93059000003 putative DNA binding surface [nucleotide binding]; other site 93059000004 dimer interface [polypeptide binding]; other site 93059000005 beta-clamp/clamp loader binding surface; other site 93059000006 beta-clamp/translesion DNA polymerase binding surface; other site 93059000007 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 93059000008 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 93059000009 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 93059000010 dimerization interface [polypeptide binding]; other site 93059000011 ATP binding site [chemical binding]; other site 93059000012 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 93059000013 dimerization interface [polypeptide binding]; other site 93059000014 ATP binding site [chemical binding]; other site 93059000015 amidophosphoribosyltransferase; Provisional; Region: PRK09246 93059000016 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 93059000017 active site 93059000018 tetramer interface [polypeptide binding]; other site 93059000019 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059000020 DNA gyrase, A subunit; Region: gyrA; TIGR01063 93059000021 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 93059000022 CAP-like domain; other site 93059000023 active site 93059000024 primary dimer interface [polypeptide binding]; other site 93059000025 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059000026 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 93059000027 TPR motif; other site 93059000028 binding surface 93059000029 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 93059000030 binding surface 93059000031 TPR motif; other site 93059000032 iron-sulfur cluster binding protein, putative; Region: TIGR00276 93059000033 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 93059000034 Protein of unknown function (DUF502); Region: DUF502; cl01107 93059000035 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 93059000036 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 93059000037 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 93059000038 P loop; other site 93059000039 GTP binding site [chemical binding]; other site 93059000040 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 93059000041 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 93059000042 argininosuccinate lyase; Provisional; Region: PRK00855 93059000043 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 93059000044 active sites [active] 93059000045 tetramer interface [polypeptide binding]; other site 93059000046 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 93059000047 RNA/DNA binding site [nucleotide binding]; other site 93059000048 RRM dimerization site [polypeptide binding]; other site 93059000049 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 93059000050 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 93059000051 FMN binding site [chemical binding]; other site 93059000052 active site 93059000053 catalytic residues [active] 93059000054 substrate binding site [chemical binding]; other site 93059000055 SelR domain; Region: SelR; cl00369 93059000056 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 93059000057 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 93059000058 dimer interface [polypeptide binding]; other site 93059000059 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 93059000060 chaperone protein DnaJ; Provisional; Region: PRK14293 93059000061 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 93059000062 HSP70 interaction site [polypeptide binding]; other site 93059000063 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 93059000064 substrate binding site [polypeptide binding]; other site 93059000065 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 93059000066 Zn binding sites [ion binding]; other site 93059000067 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 93059000068 dimer interface [polypeptide binding]; other site 93059000069 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 93059000070 CPxP motif; other site 93059000071 Predicted GTPases [General function prediction only]; Region: COG1162 93059000072 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 93059000073 GTPase/OB domain interface [polypeptide binding]; other site 93059000074 GTPase/Zn-binding domain interface [polypeptide binding]; other site 93059000075 GTP/Mg2+ binding site [chemical binding]; other site 93059000076 G4 box; other site 93059000077 G5 box; other site 93059000078 G1 box; other site 93059000079 Switch I region; other site 93059000080 G2 box; other site 93059000081 G3 box; other site 93059000082 Switch II region; other site 93059000083 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 93059000084 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 93059000085 FAD binding domain; Region: FAD_binding_4; pfam01565 93059000086 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 93059000087 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 93059000088 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 93059000089 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 93059000090 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK07403 93059000091 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 93059000092 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 93059000093 thiamine monophosphate kinase; Provisional; Region: PRK05731 93059000094 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 93059000095 ATP binding site [chemical binding]; other site 93059000096 dimerization interface [polypeptide binding]; other site 93059000097 cyclophilin_TLP40_like: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl...; Region: cyclophilin_TLP40_like; cd01924 93059000098 active site 93059000099 elongation factor P; Validated; Region: PRK00529 93059000100 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 93059000101 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 93059000102 RNA binding site [nucleotide binding]; other site 93059000103 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 93059000104 RNA binding site [nucleotide binding]; other site 93059000105 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 93059000106 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 93059000107 carboxyltransferase (CT) interaction site; other site 93059000108 biotinylation site [posttranslational modification]; other site 93059000109 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 93059000110 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 93059000111 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 93059000112 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 93059000113 putative NAD(P) binding site [chemical binding]; other site 93059000114 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 93059000115 short chain dehydrogenase; Provisional; Region: PRK07201 93059000116 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 93059000117 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 93059000118 homodimer interface [polypeptide binding]; other site 93059000119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059000120 catalytic residue [active] 93059000121 CbiD; Region: CbiD; cl00828 93059000122 GMP synthase; Reviewed; Region: guaA; PRK00074 93059000123 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 93059000124 AMP/PPi binding site [chemical binding]; other site 93059000125 candidate oxyanion hole; other site 93059000126 catalytic triad [active] 93059000127 potential glutamine specificity residues [chemical binding]; other site 93059000128 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 93059000129 ATP Binding subdomain [chemical binding]; other site 93059000130 Ligand Binding sites [chemical binding]; other site 93059000131 Dimerization subdomain; other site 93059000132 probable rhamnose biosynthetic enzyme; Region: PLN02260 93059000133 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 93059000134 DNA binding site [nucleotide binding] 93059000135 Int/Topo IB signature motif; other site 93059000136 active site 93059000137 catalytic residues [active] 93059000138 OpgC protein; Region: OpgC_C; cl00792 93059000139 Acyltransferase family; Region: Acyl_transf_3; pfam01757 93059000140 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 93059000141 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 93059000142 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 93059000143 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 93059000144 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 93059000145 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 93059000146 Flavin Reductases; Region: FlaRed; cl00801 93059000147 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 93059000148 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059000149 Flavin Reductases; Region: FlaRed; cl00801 93059000150 SWIM zinc finger; Region: SWIM; cl15408 93059000151 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 93059000152 SNF2 Helicase protein; Region: DUF3670; pfam12419 93059000153 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 93059000154 ATP binding site [chemical binding]; other site 93059000155 putative Mg++ binding site [ion binding]; other site 93059000156 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 93059000157 nucleotide binding region [chemical binding]; other site 93059000158 ATP-binding site [chemical binding]; other site 93059000159 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 93059000160 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 93059000161 motif 1; other site 93059000162 active site 93059000163 motif 2; other site 93059000164 motif 3; other site 93059000165 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 93059000166 DHHA1 domain; Region: DHHA1; pfam02272 93059000167 arginine decarboxylase; Provisional; Region: PRK05354 93059000168 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 93059000169 dimer interface [polypeptide binding]; other site 93059000170 active site 93059000171 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 93059000172 catalytic residues [active] 93059000173 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 93059000174 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 93059000175 active site 93059000176 multimer interface [polypeptide binding]; other site 93059000177 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 93059000178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000179 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 93059000180 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 93059000181 GatB domain; Region: GatB_Yqey; cl11497 93059000182 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 93059000183 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 93059000184 CoA-binding site [chemical binding]; other site 93059000185 ATP-binding [chemical binding]; other site 93059000186 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 93059000187 heterotetramer interface [polypeptide binding]; other site 93059000188 active site pocket [active] 93059000189 cleavage site 93059000190 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 93059000191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000192 Walker A/P-loop; other site 93059000193 ATP binding site [chemical binding]; other site 93059000194 Q-loop/lid; other site 93059000195 ABC transporter signature motif; other site 93059000196 Walker B; other site 93059000197 D-loop; other site 93059000198 H-loop/switch region; other site 93059000199 THUMP domain; Region: THUMP; cl12076 93059000200 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059000201 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 93059000202 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 93059000203 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 93059000204 Walker A/P-loop; other site 93059000205 ATP binding site [chemical binding]; other site 93059000206 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 93059000207 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 93059000208 Q-loop/lid; other site 93059000209 ABC transporter signature motif; other site 93059000210 Walker B; other site 93059000211 D-loop; other site 93059000212 H-loop/switch region; other site 93059000213 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 93059000214 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 93059000215 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 93059000216 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 93059000217 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059000218 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 93059000219 YGGT family; Region: YGGT; cl00508 93059000220 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 93059000221 transcription termination factor Rho; Provisional; Region: PRK12678 93059000222 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 93059000223 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 93059000224 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 93059000225 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 93059000226 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 93059000227 nucleotide binding site/active site [active] 93059000228 HIT family signature motif; other site 93059000229 catalytic residue [active] 93059000230 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 93059000231 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 93059000232 active site 93059000233 catalytic residues [active] 93059000234 metal binding site [ion binding]; metal-binding site 93059000235 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 93059000236 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 93059000237 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 93059000238 Aminotransferase class-V; Region: Aminotran_5; pfam00266 93059000239 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059000240 catalytic residue [active] 93059000241 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 93059000242 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 93059000243 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 93059000244 Walker A/P-loop; other site 93059000245 ATP binding site [chemical binding]; other site 93059000246 Q-loop/lid; other site 93059000247 ABC transporter signature motif; other site 93059000248 Walker B; other site 93059000249 D-loop; other site 93059000250 H-loop/switch region; other site 93059000251 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 93059000252 putative ABC transporter; Region: ycf24; CHL00085 93059000253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 93059000254 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 93059000255 phosphoglucomutase; Region: PLN02307 93059000256 active site 93059000257 substrate binding site [chemical binding]; other site 93059000258 metal binding site [ion binding]; metal-binding site 93059000259 recombination factor protein RarA; Reviewed; Region: PRK13342 93059000260 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 93059000261 Walker A motif; other site 93059000262 ATP binding site [chemical binding]; other site 93059000263 Walker B motif; other site 93059000264 arginine finger; other site 93059000265 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 93059000266 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 93059000267 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 93059000268 catalytic triad [active] 93059000269 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 93059000270 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 93059000271 Active Sites [active] 93059000272 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 93059000273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000274 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 93059000275 transmembrane helices; other site 93059000276 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 93059000277 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 93059000278 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 93059000279 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 93059000280 Cation transport protein; Region: TrkH; cl10514 93059000281 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 93059000282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000283 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 93059000284 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 93059000285 Protein of unknown function (DUF1662); Region: DUF1662; pfam07878 93059000286 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 93059000287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000288 Walker A/P-loop; other site 93059000289 ATP binding site [chemical binding]; other site 93059000290 Q-loop/lid; other site 93059000291 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 93059000292 ABC transporter; Region: ABC_tran_2; pfam12848 93059000293 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 93059000294 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 93059000295 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 93059000296 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 93059000297 protein binding site [polypeptide binding]; other site 93059000298 Protein of unknown function (DUF2973); Region: DUF2973; pfam11189 93059000299 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 93059000300 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 93059000301 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 93059000302 generic binding surface II; other site 93059000303 generic binding surface I; other site 93059000304 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 93059000305 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 93059000306 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 93059000307 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 93059000308 active site 93059000309 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 93059000310 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 93059000311 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 93059000312 Protein of unknown function (DUF512); Region: DUF512; pfam04459 93059000313 Protein of unknown function (DUF3120); Region: DUF3120; pfam11318 93059000314 L-aspartate oxidase; Provisional; Region: PRK07395 93059000315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000316 domain; Region: Succ_DH_flav_C; pfam02910 93059000317 Vitamin K epoxide reductase family; Region: VKOR; cl01729 93059000318 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 93059000319 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 93059000320 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 93059000321 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 93059000322 FeS/SAM binding site; other site 93059000323 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 93059000324 FemAB family; Region: FemAB; cl11444 93059000325 Protein of unknown function, DUF482; Region: DUF482; pfam04339 93059000326 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 93059000327 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 93059000328 active site 93059000329 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 93059000330 active site 93059000331 shikimate kinase; Reviewed; Region: aroK; PRK00131 93059000332 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 93059000333 ADP binding site [chemical binding]; other site 93059000334 magnesium binding site [ion binding]; other site 93059000335 putative shikimate binding site; other site 93059000336 Protein of unknown function (DUF3571); Region: DUF3571; pfam12095 93059000337 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 93059000338 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 93059000339 C-terminal domain interface [polypeptide binding]; other site 93059000340 GSH binding site (G-site) [chemical binding]; other site 93059000341 dimer interface [polypeptide binding]; other site 93059000342 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 93059000343 N-terminal domain interface [polypeptide binding]; other site 93059000344 Protein of unknown function (DUF751); Region: DUF751; pfam05421 93059000345 Ribosome-binding factor A; Region: RBFA; cl00542 93059000346 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 93059000347 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 93059000348 active site 93059000349 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 93059000350 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 93059000351 putative hydrophobic ligand binding site [chemical binding]; other site 93059000352 Uncharacterized conserved protein [Function unknown]; Region: COG3349 93059000353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000354 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 93059000355 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 93059000356 binding surface 93059000357 TPR motif; other site 93059000358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 93059000359 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 93059000360 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 93059000361 TIGR01777 family protein; Region: yfcH 93059000362 putative NAD(P) binding site [chemical binding]; other site 93059000363 putative active site [active] 93059000364 Cyanobacterial and plant NDH-1 subunit O; Region: NdhO; pfam11910 93059000365 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 93059000366 HSP70 interaction site [polypeptide binding]; other site 93059000367 cysteine synthase; Region: PLN02565 93059000368 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 93059000369 dimer interface [polypeptide binding]; other site 93059000370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059000371 catalytic residue [active] 93059000372 hypothetical protein; Provisional; Region: PRK13683 93059000373 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 93059000374 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 93059000375 Walker A/P-loop; other site 93059000376 ATP binding site [chemical binding]; other site 93059000377 Q-loop/lid; other site 93059000378 ABC transporter signature motif; other site 93059000379 Walker B; other site 93059000380 D-loop; other site 93059000381 H-loop/switch region; other site 93059000382 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 93059000383 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 93059000384 putative trimer interface [polypeptide binding]; other site 93059000385 putative CoA binding site [chemical binding]; other site 93059000386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 93059000387 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 93059000388 active site 93059000389 phosphorylation site [posttranslational modification] 93059000390 intermolecular recognition site; other site 93059000391 dimerization interface [polypeptide binding]; other site 93059000392 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 93059000393 DNA binding site [nucleotide binding] 93059000394 DNA polymerase III subunit delta'; Validated; Region: PRK07399 93059000395 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 93059000396 thymidylate kinase; Validated; Region: tmk; PRK00698 93059000397 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 93059000398 TMP-binding site; other site 93059000399 ATP-binding site [chemical binding]; other site 93059000400 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 93059000401 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 93059000402 metal-binding site [ion binding] 93059000403 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 93059000404 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 93059000405 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 93059000406 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 93059000407 binding surface 93059000408 TPR motif; other site 93059000409 DNA repair protein RadA; Provisional; Region: PRK11823 93059000410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000411 Walker A motif; other site 93059000412 ATP binding site [chemical binding]; other site 93059000413 Walker B motif; other site 93059000414 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 93059000415 Ycf27; Reviewed; Region: orf27; CHL00148 93059000416 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 93059000417 active site 93059000418 phosphorylation site [posttranslational modification] 93059000419 intermolecular recognition site; other site 93059000420 dimerization interface [polypeptide binding]; other site 93059000421 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 93059000422 DNA binding site [nucleotide binding] 93059000423 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 93059000424 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 93059000425 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 93059000426 dimer interface [polypeptide binding]; other site 93059000427 active site 93059000428 CoA binding pocket [chemical binding]; other site 93059000429 Acyl transferase domain; Region: Acyl_transf_1; cl08282 93059000430 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 93059000431 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 93059000432 putative acyl-acceptor binding pocket; other site 93059000433 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 93059000434 putative active site [active] 93059000435 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 93059000436 Hypothetical chloroplast protein Ycf34; Region: Ycf34; pfam10718 93059000437 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 93059000438 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 93059000439 active site 93059000440 NTP binding site [chemical binding]; other site 93059000441 metal binding triad [ion binding]; metal-binding site 93059000442 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 93059000443 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 93059000444 RNA/DNA binding site [nucleotide binding]; other site 93059000445 RRM dimerization site [polypeptide binding]; other site 93059000446 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 93059000447 active site lid residues [active] 93059000448 substrate binding pocket [chemical binding]; other site 93059000449 catalytic residues [active] 93059000450 substrate-Mg2+ binding site; other site 93059000451 aspartate-rich region 1; other site 93059000452 aspartate-rich region 2; other site 93059000453 Uncharacterized conserved protein [Function unknown]; Region: COG3349 93059000454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000455 Cyanobacterial and plastid NDH-1 subunit M; Region: NdhM; pfam10664 93059000456 Protein of unknown function (DUF3172); Region: DUF3172; pfam11371 93059000457 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 93059000458 Helix-turn-helix domains; Region: HTH; cl00088 93059000459 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 93059000460 putative dimerization interface [polypeptide binding]; other site 93059000461 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 93059000462 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 93059000463 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 93059000464 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 93059000465 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 93059000466 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK02546 93059000467 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 93059000468 ScpA/B protein; Region: ScpA_ScpB; cl00598 93059000469 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 93059000470 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 93059000471 active site 93059000472 Substrate binding site; other site 93059000473 Mg++ binding site; other site 93059000474 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 93059000475 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 93059000476 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 93059000477 FAD binding site [chemical binding]; other site 93059000478 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 93059000479 DNA binding residues [nucleotide binding] 93059000480 dimerization interface [polypeptide binding]; other site 93059000481 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 93059000482 putative active site [active] 93059000483 putative metal binding residues [ion binding]; other site 93059000484 signature motif; other site 93059000485 putative dimer interface [polypeptide binding]; other site 93059000486 putative phosphate binding site [ion binding]; other site 93059000487 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 93059000488 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 93059000489 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 93059000490 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 93059000491 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 93059000492 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 93059000493 NADH dehydrogenase; Region: NADHdh; cl00469 93059000494 citrate synthase; Provisional; Region: PRK14036 93059000495 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 93059000496 oxalacetate binding site [chemical binding]; other site 93059000497 citrylCoA binding site [chemical binding]; other site 93059000498 coenzyme A binding site [chemical binding]; other site 93059000499 catalytic triad [active] 93059000500 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 93059000501 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 93059000502 active site residue [active] 93059000503 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 93059000504 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 93059000505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059000506 catalytic residue [active] 93059000507 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 93059000508 Predicted RNA interaction site [nucleotide binding]; other site 93059000509 putative binding site; other site 93059000510 Mutations affecting start-site selection; other site 93059000511 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 93059000512 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 93059000513 ligand-binding site [chemical binding]; other site 93059000514 AIR carboxylase; Region: AIRC; cl00310 93059000515 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 93059000516 active site 93059000517 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 93059000518 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059000519 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059000520 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 93059000521 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 93059000522 active site 93059000523 phosphorylation site [posttranslational modification] 93059000524 intermolecular recognition site; other site 93059000525 dimerization interface [polypeptide binding]; other site 93059000526 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 93059000527 DNA binding residues [nucleotide binding] 93059000528 dimerization interface [polypeptide binding]; other site 93059000529 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059000530 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 93059000531 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059000532 catalytic residue [active] 93059000533 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 93059000534 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059000535 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 93059000536 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 93059000537 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 93059000538 active site 93059000539 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 93059000540 O-succinylbenzoate synthase; Provisional; Region: PRK02714 93059000541 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 93059000542 active site 93059000543 UbiA prenyltransferase family; Region: UbiA; cl00337 93059000544 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 93059000545 chorismate binding enzyme; Region: Chorismate_bind; cl10555 93059000546 glutathione synthetase; Provisional; Region: PRK05246 93059000547 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 93059000548 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059000549 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 93059000550 GSH binding site [chemical binding]; other site 93059000551 catalytic residues [active] 93059000552 peptide chain release factor 2; Validated; Region: prfB; PRK00578 93059000553 RF-1 domain; Region: RF-1; cl02875 93059000554 RF-1 domain; Region: RF-1; cl02875 93059000555 Protein of unknown function (DUF3285); Region: DUF3285; pfam11688 93059000556 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 93059000557 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 93059000558 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 93059000559 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 93059000560 glutamine binding [chemical binding]; other site 93059000561 catalytic triad [active] 93059000562 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059000563 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 93059000564 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 93059000565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059000566 homodimer interface [polypeptide binding]; other site 93059000567 catalytic residue [active] 93059000568 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 93059000569 arginine-tRNA ligase; Region: PLN02286 93059000570 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 93059000571 active site 93059000572 HIGH motif; other site 93059000573 KMSK motif region; other site 93059000574 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 93059000575 tRNA binding surface [nucleotide binding]; other site 93059000576 anticodon binding site; other site 93059000577 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 93059000578 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 93059000579 dimerization interface [polypeptide binding]; other site 93059000580 active site 93059000581 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 93059000582 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 93059000583 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 93059000584 G1 box; other site 93059000585 GTP/Mg2+ binding site [chemical binding]; other site 93059000586 Switch I region; other site 93059000587 G2 box; other site 93059000588 Switch II region; other site 93059000589 G3 box; other site 93059000590 G4 box; other site 93059000591 G5 box; other site 93059000592 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 93059000593 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 93059000594 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 93059000595 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 93059000596 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 93059000597 synthetase active site [active] 93059000598 NTP binding site [chemical binding]; other site 93059000599 metal binding site [ion binding]; metal-binding site 93059000600 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 93059000601 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 93059000602 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 93059000603 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 93059000604 Walker A/P-loop; other site 93059000605 ATP binding site [chemical binding]; other site 93059000606 Q-loop/lid; other site 93059000607 ABC transporter signature motif; other site 93059000608 Walker B; other site 93059000609 D-loop; other site 93059000610 H-loop/switch region; other site 93059000611 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 93059000612 Walker A/P-loop; other site 93059000613 ATP binding site [chemical binding]; other site 93059000614 Q-loop/lid; other site 93059000615 ABC transporter signature motif; other site 93059000616 Walker B; other site 93059000617 D-loop; other site 93059000618 H-loop/switch region; other site 93059000619 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 93059000620 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 93059000621 RNA binding surface [nucleotide binding]; other site 93059000622 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 93059000623 active site 93059000624 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 93059000625 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 93059000626 GTP/Mg2+ binding site [chemical binding]; other site 93059000627 G4 box; other site 93059000628 G5 box; other site 93059000629 G1 box; other site 93059000630 Switch I region; other site 93059000631 G2 box; other site 93059000632 G3 box; other site 93059000633 Switch II region; other site 93059000634 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 93059000635 Phosphoglycerate kinase; Region: PGK; pfam00162 93059000636 substrate binding site [chemical binding]; other site 93059000637 hinge regions; other site 93059000638 ADP binding site [chemical binding]; other site 93059000639 catalytic site [active] 93059000640 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 93059000641 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 93059000642 active site 93059000643 homodimer interface [polypeptide binding]; other site 93059000644 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 93059000645 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 93059000646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059000647 homodimer interface [polypeptide binding]; other site 93059000648 catalytic residue [active] 93059000649 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 93059000650 quinone interaction residues [chemical binding]; other site 93059000651 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 93059000652 active site 93059000653 catalytic residues [active] 93059000654 FMN binding site [chemical binding]; other site 93059000655 substrate binding site [chemical binding]; other site 93059000656 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 93059000657 RNA/DNA hybrid binding site [nucleotide binding]; other site 93059000658 active site 93059000659 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 93059000660 L11 interface [polypeptide binding]; other site 93059000661 putative EF-Tu interaction site [polypeptide binding]; other site 93059000662 putative EF-G interaction site [polypeptide binding]; other site 93059000663 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 93059000664 23S rRNA interface [nucleotide binding]; other site 93059000665 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 93059000666 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 93059000667 mRNA/rRNA interface [nucleotide binding]; other site 93059000668 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 93059000669 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 93059000670 23S rRNA interface [nucleotide binding]; other site 93059000671 L7/L12 interface [polypeptide binding]; other site 93059000672 putative thiostrepton binding site; other site 93059000673 L25 interface [polypeptide binding]; other site 93059000674 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 93059000675 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 93059000676 putative homodimer interface [polypeptide binding]; other site 93059000677 KOW motif; Region: KOW; cl00354 93059000678 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 93059000679 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 93059000680 Clp amino terminal domain; Region: Clp_N; pfam02861 93059000681 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 93059000682 Walker A motif; other site 93059000683 ATP binding site [chemical binding]; other site 93059000684 Walker B motif; other site 93059000685 arginine finger; other site 93059000686 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 93059000687 Walker A motif; other site 93059000688 ATP binding site [chemical binding]; other site 93059000689 Walker B motif; other site 93059000690 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 93059000691 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 93059000692 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 93059000693 dimer interface [polypeptide binding]; other site 93059000694 active site 93059000695 metal binding site [ion binding]; metal-binding site 93059000696 glutathione binding site [chemical binding]; other site 93059000697 enolase; Provisional; Region: eno; PRK00077 93059000698 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 93059000699 dimer interface [polypeptide binding]; other site 93059000700 metal binding site [ion binding]; metal-binding site 93059000701 substrate binding pocket [chemical binding]; other site 93059000702 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 93059000703 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 93059000704 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 93059000705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000706 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 93059000707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000708 Domain of unknown function (DUF897); Region: DUF897; cl01312 93059000709 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 93059000710 Permease family; Region: Xan_ur_permease; cl00967 93059000711 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 93059000712 chaperone protein DnaJ; Provisional; Region: PRK14299 93059000713 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 93059000714 HSP70 interaction site [polypeptide binding]; other site 93059000715 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 93059000716 substrate binding site [polypeptide binding]; other site 93059000717 dimer interface [polypeptide binding]; other site 93059000718 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 93059000719 dimer interface [polypeptide binding]; other site 93059000720 active site 93059000721 aspartate-rich active site metal binding site; other site 93059000722 allosteric magnesium binding site [ion binding]; other site 93059000723 Schiff base residues; other site 93059000724 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 93059000725 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 93059000726 active site 93059000727 metal binding site [ion binding]; metal-binding site 93059000728 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 93059000729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000730 Walker A/P-loop; other site 93059000731 ATP binding site [chemical binding]; other site 93059000732 Q-loop/lid; other site 93059000733 ABC transporter signature motif; other site 93059000734 Walker B; other site 93059000735 D-loop; other site 93059000736 H-loop/switch region; other site 93059000737 Smr domain; Region: Smr; cl02619 93059000738 GTPase CgtA; Reviewed; Region: obgE; PRK12299 93059000739 GTP1/OBG; Region: GTP1_OBG; pfam01018 93059000740 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 93059000741 G1 box; other site 93059000742 GTP/Mg2+ binding site [chemical binding]; other site 93059000743 Switch I region; other site 93059000744 G2 box; other site 93059000745 G3 box; other site 93059000746 Switch II region; other site 93059000747 G4 box; other site 93059000748 G5 box; other site 93059000749 CP12 domain; Region: CP12; cl14670 93059000750 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 93059000751 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 93059000752 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 93059000753 putative dimer interface [polypeptide binding]; other site 93059000754 N-terminal domain interface [polypeptide binding]; other site 93059000755 putative substrate binding pocket (H-site) [chemical binding]; other site 93059000756 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 93059000757 Peptidase M14 Aspartoacylase (ASPA) subfamily; Region: M14_ASPA; cd06909 93059000758 active site 93059000759 Zn binding site [ion binding]; other site 93059000760 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 93059000761 protein I interface; other site 93059000762 D2 interface; other site 93059000763 protein T interface; other site 93059000764 chlorophyll binding site; other site 93059000765 beta carotene binding site; other site 93059000766 pheophytin binding site; other site 93059000767 manganese-stabilizing polypeptide interface; other site 93059000768 CP43 interface; other site 93059000769 protein L interface; other site 93059000770 oxygen evolving complex binding site; other site 93059000771 bromide binding site; other site 93059000772 quinone binding site; other site 93059000773 Fe binding site [ion binding]; other site 93059000774 core light harvesting interface; other site 93059000775 cytochrome b559 alpha subunit interface; other site 93059000776 cytochrome c-550 interface; other site 93059000777 protein J interface; other site 93059000778 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 93059000779 Tetramer interface [polypeptide binding]; other site 93059000780 active site 93059000781 FMN-binding site [chemical binding]; other site 93059000782 FtsH Extracellular; Region: FtsH_ext; pfam06480 93059000783 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 93059000784 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 93059000785 Walker A motif; other site 93059000786 ATP binding site [chemical binding]; other site 93059000787 Walker B motif; other site 93059000788 arginine finger; other site 93059000789 Peptidase family M41; Region: Peptidase_M41; pfam01434 93059000790 ATP-sulfurylase; Region: ATPS; cd00517 93059000791 active site 93059000792 HXXH motif; other site 93059000793 flexible loop; other site 93059000794 Manganese-stabilising protein / photosystem II polypeptide; Region: MSP; cl03326 93059000795 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 93059000796 Flavoprotein; Region: Flavoprotein; cl08021 93059000797 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 93059000798 Protein of unknown function (DUF2555); Region: DUF2555; pfam10742 93059000799 Protein of unknown function (DUF565); Region: DUF565; pfam04483 93059000800 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 93059000801 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 93059000802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000803 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 93059000804 active site 93059000805 DNA binding site [nucleotide binding] 93059000806 Creatinine amidohydrolase; Region: Creatininase; cl00618 93059000807 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 93059000808 Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important...; Region: CrtR_beta-carotene-hydroxylase; cd03514 93059000809 Fatty acid desaturase; Region: FA_desaturase; pfam00487 93059000810 putative di-iron ligands [ion binding]; other site 93059000811 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 93059000812 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 93059000813 active site 93059000814 HIGH motif; other site 93059000815 nucleotide binding site [chemical binding]; other site 93059000816 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 93059000817 active site 93059000818 KMSKS motif; other site 93059000819 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 93059000820 tRNA binding surface [nucleotide binding]; other site 93059000821 anticodon binding site; other site 93059000822 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 93059000823 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 93059000824 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059000825 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 93059000826 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 93059000827 active site 93059000828 substrate binding site [chemical binding]; other site 93059000829 metal binding site [ion binding]; metal-binding site 93059000830 LppC putative lipoprotein; Region: LppC; pfam04348 93059000831 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 93059000832 Thymidylate synthase complementing protein; Region: Thy1; cl03630 93059000833 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 93059000834 trimer interface [polypeptide binding]; other site 93059000835 active site 93059000836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000837 Walker A motif; other site 93059000838 ATP binding site [chemical binding]; other site 93059000839 Walker B motif; other site 93059000840 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 93059000841 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 93059000842 ligand binding site [chemical binding]; other site 93059000843 flexible hinge region; other site 93059000844 Helix-turn-helix domains; Region: HTH; cl00088 93059000845 putative switch regulator; other site 93059000846 non-specific DNA interactions [nucleotide binding]; other site 93059000847 DNA binding site [nucleotide binding] 93059000848 putative cAMP binding site [chemical binding]; other site 93059000849 sequence specific DNA binding site [nucleotide binding]; other site 93059000850 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 93059000851 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 93059000852 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 93059000853 Protein of unknown function (DUF3146); Region: DUF3146; pfam11344 93059000854 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 93059000855 putative active site [active] 93059000856 catalytic residue [active] 93059000857 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 93059000858 Photosystem II 10 kDa phosphoprotein; Region: PsbH; cl02951 93059000859 Photosystem II reaction centre N protein (psbN); Region: PsbN; cl03605 93059000860 Photosystem II reaction centre I protein (PSII 4.8 kDa protein); Region: PsbI; cl03640 93059000861 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 93059000862 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 93059000863 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 93059000864 substrate binding site [chemical binding]; other site 93059000865 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 93059000866 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 93059000867 substrate binding site [chemical binding]; other site 93059000868 ligand binding site [chemical binding]; other site 93059000869 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 93059000870 competence damage-inducible protein A; Provisional; Region: PRK00549 93059000871 putative MPT binding site; other site 93059000872 Competence-damaged protein; Region: CinA; cl00666 93059000873 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 93059000874 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 93059000875 dimer interface [polypeptide binding]; other site 93059000876 glycine-pyridoxal phosphate binding site [chemical binding]; other site 93059000877 active site 93059000878 folate binding site [chemical binding]; other site 93059000879 Protein of unknown function (DUF3181); Region: DUF3181; pfam11378 93059000880 integral membrane protein MviN; Region: mviN; TIGR01695 93059000881 Sugar fermentation stimulation protein; Region: SfsA; cl00647 93059000882 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 93059000883 LytB protein; Region: LYTB; cl00507 93059000884 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 93059000885 DoxX; Region: DoxX; cl00976 93059000886 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 93059000887 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 93059000888 purine monophosphate binding site [chemical binding]; other site 93059000889 dimer interface [polypeptide binding]; other site 93059000890 putative catalytic residues [active] 93059000891 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 93059000892 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 93059000893 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 93059000894 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 93059000895 Protein of unknown function (DUF3155); Region: DUF3155; pfam11352 93059000896 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 93059000897 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 93059000898 dimer interface [polypeptide binding]; other site 93059000899 phosphorylation site [posttranslational modification] 93059000900 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 93059000901 Mg2+ binding site [ion binding]; other site 93059000902 G-X-G motif; other site 93059000903 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 93059000904 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 93059000905 Photosystem II 4 kDa reaction centre component; Region: PsbK; cl03641 93059000906 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 93059000907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059000908 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 93059000909 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 93059000910 Domain of unknown function DUF21; Region: DUF21; pfam01595 93059000911 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 93059000912 Transporter associated domain; Region: CorC_HlyC; cl08393 93059000913 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059000914 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 93059000915 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 93059000916 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 93059000917 Y-family of DNA polymerases; Region: PolY; cl12025 93059000918 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 93059000919 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 93059000920 active site 93059000921 substrate binding site [chemical binding]; other site 93059000922 metal binding site [ion binding]; metal-binding site 93059000923 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 93059000924 active site 93059000925 dimerization interface [polypeptide binding]; other site 93059000926 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 93059000927 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 93059000928 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 93059000929 putative active site pocket [active] 93059000930 4-fold oligomerization interface [polypeptide binding]; other site 93059000931 metal binding residues [ion binding]; metal-binding site 93059000932 3-fold/trimer interface [polypeptide binding]; other site 93059000933 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 93059000934 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 93059000935 NAD binding site [chemical binding]; other site 93059000936 homotetramer interface [polypeptide binding]; other site 93059000937 homodimer interface [polypeptide binding]; other site 93059000938 substrate binding site [chemical binding]; other site 93059000939 active site 93059000940 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 93059000941 putative catalytic residue [active] 93059000942 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 93059000943 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 93059000944 inhibitor-cofactor binding pocket; inhibition site 93059000945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059000946 catalytic residue [active] 93059000947 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 93059000948 dimer interface [polypeptide binding]; other site 93059000949 ADP-ribose binding site [chemical binding]; other site 93059000950 active site 93059000951 nudix motif; other site 93059000952 metal binding site [ion binding]; metal-binding site 93059000953 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 93059000954 catalytic center binding site [active] 93059000955 ATP binding site [chemical binding]; other site 93059000956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000957 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 93059000958 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 93059000959 metal ion-dependent adhesion site (MIDAS); other site 93059000960 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 93059000961 mce related protein; Region: MCE; cl15431 93059000962 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 93059000963 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059000964 Walker A/P-loop; other site 93059000965 ATP binding site [chemical binding]; other site 93059000966 Q-loop/lid; other site 93059000967 ABC transporter signature motif; other site 93059000968 Walker B; other site 93059000969 D-loop; other site 93059000970 H-loop/switch region; other site 93059000971 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 93059000972 phosphate binding site [ion binding]; other site 93059000973 putative substrate binding pocket [chemical binding]; other site 93059000974 dimer interface [polypeptide binding]; other site 93059000975 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 93059000976 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 93059000977 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 93059000978 Rubredoxin [Energy production and conversion]; Region: COG1773 93059000979 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 93059000980 iron binding site [ion binding]; other site 93059000981 Ycf48-like protein; Provisional; Region: PRK13684 93059000982 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 93059000983 cytochrome b559 subunit alpha; Provisional; Region: psbE; PRK02557 93059000984 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; cl02834 93059000985 Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit; Region: Cytochrom_B559a; pfam00284 93059000986 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; cl02834 93059000987 PsbL protein; Region: PsbL; cl03581 93059000988 PsbJ; Region: PsbJ; cl09469 93059000989 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 93059000990 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 93059000991 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 93059000992 dimerization interface [polypeptide binding]; other site 93059000993 putative ATP binding site [chemical binding]; other site 93059000994 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 93059000995 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 93059000996 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 93059000997 active site 93059000998 NTP binding site [chemical binding]; other site 93059000999 metal binding triad [ion binding]; metal-binding site 93059001000 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 93059001001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001002 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001003 Phycobilisome protein; Region: Phycobilisome; cl08227 93059001004 Phycobilisome protein; Region: Phycobilisome; cl08227 93059001005 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 93059001006 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 93059001007 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 93059001008 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 93059001009 CpeS-like protein; Region: CpeS; pfam09367 93059001010 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 93059001011 PUCC protein; Region: PUCC; pfam03209 93059001012 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 93059001013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001014 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 93059001015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001016 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 93059001017 N- and C-terminal domain interface [polypeptide binding]; other site 93059001018 active site 93059001019 MgATP binding site [chemical binding]; other site 93059001020 catalytic site [active] 93059001021 metal binding site [ion binding]; metal-binding site 93059001022 carbohydrate binding site [chemical binding]; other site 93059001023 S-adenosylmethionine synthetase; Validated; Region: PRK05250 93059001024 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 93059001025 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 93059001026 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 93059001027 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 93059001028 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 93059001029 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 93059001030 motif II; other site 93059001031 30S ribosomal protein S1; Reviewed; Region: PRK07400 93059001032 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 93059001033 RNA binding site [nucleotide binding]; other site 93059001034 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 93059001035 RNA binding site [nucleotide binding]; other site 93059001036 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 93059001037 RNA binding site [nucleotide binding]; other site 93059001038 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 93059001039 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 93059001040 ATP cone domain; Region: ATP-cone; pfam03477 93059001041 Photosystem II protein; Region: PSII; cl08223 93059001042 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 93059001043 catalytic loop [active] 93059001044 iron binding site [ion binding]; other site 93059001045 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 93059001046 active site 93059001047 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 93059001048 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059001049 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 93059001050 Septum formation topological specificity factor MinE; Region: MinE; cl00538 93059001051 septum site-determining protein MinD; Region: minD_bact; TIGR01968 93059001052 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 93059001053 P-loop; other site 93059001054 ADP binding residues [chemical binding]; other site 93059001055 Switch I; other site 93059001056 Switch II; other site 93059001057 septum formation inhibitor; Reviewed; Region: minC; PRK04804 93059001058 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 93059001059 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 93059001060 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 93059001061 Zn2+ binding site [ion binding]; other site 93059001062 Mg2+ binding site [ion binding]; other site 93059001063 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 93059001064 C-terminal peptidase (prc); Region: prc; TIGR00225 93059001065 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 93059001066 protein binding site [polypeptide binding]; other site 93059001067 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 93059001068 Catalytic dyad [active] 93059001069 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 93059001070 Qi binding site; other site 93059001071 intrachain domain interface; other site 93059001072 interchain domain interface [polypeptide binding]; other site 93059001073 heme bH binding site [chemical binding]; other site 93059001074 heme bL binding site [chemical binding]; other site 93059001075 Qo binding site; other site 93059001076 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 93059001077 interchain domain interface [polypeptide binding]; other site 93059001078 intrachain domain interface; other site 93059001079 Qi binding site; other site 93059001080 Qo binding site; other site 93059001081 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 93059001082 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK13945 93059001083 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 93059001084 DNA binding site [nucleotide binding] 93059001085 catalytic residue [active] 93059001086 H2TH interface [polypeptide binding]; other site 93059001087 putative catalytic residues [active] 93059001088 turnover-facilitating residue; other site 93059001089 intercalation triad [nucleotide binding]; other site 93059001090 8OG recognition residue [nucleotide binding]; other site 93059001091 putative reading head residues; other site 93059001092 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 93059001093 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 93059001094 Photosystem I reaction centre subunit IV / PsaE; Region: PSI_PsaE; cl03585 93059001095 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 93059001096 putative peptidoglycan binding site; other site 93059001097 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 93059001098 putative peptidoglycan binding site; other site 93059001099 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 93059001100 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 93059001101 putative peptidoglycan binding site; other site 93059001102 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 93059001103 NAD(P) binding site [chemical binding]; other site 93059001104 catalytic residues [active] 93059001105 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 93059001106 NADH dehydrogenase subunit G; Validated; Region: PRK08493 93059001107 GLTT repeat (6 copies); Region: GLTT; pfam01744 93059001108 GLTT repeat (6 copies); Region: GLTT; pfam01744 93059001109 Protein of unknown function; Region: DUF3721; pfam12518 93059001110 HupE / UreJ protein; Region: HupE_UreJ; cl01011 93059001111 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; cl02834 93059001112 integrase; Provisional; Region: int; PHA02601 93059001113 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 93059001114 DNA binding site [nucleotide binding] 93059001115 Int/Topo IB signature motif; other site 93059001116 active site 93059001117 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 93059001118 active site 93059001119 trimer interface [polypeptide binding]; other site 93059001120 dimer interface [polypeptide binding]; other site 93059001121 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 93059001122 active site 93059001123 dinuclear metal binding site [ion binding]; other site 93059001124 dimerization interface [polypeptide binding]; other site 93059001125 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 93059001126 Domain of unknown function (DUF1823); Region: DUF1823; pfam08853 93059001127 GTP-binding protein Der; Reviewed; Region: PRK00093 93059001128 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 93059001129 G1 box; other site 93059001130 GTP/Mg2+ binding site [chemical binding]; other site 93059001131 Switch I region; other site 93059001132 G2 box; other site 93059001133 Switch II region; other site 93059001134 G3 box; other site 93059001135 G4 box; other site 93059001136 G5 box; other site 93059001137 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 93059001138 G1 box; other site 93059001139 GTP/Mg2+ binding site [chemical binding]; other site 93059001140 Switch I region; other site 93059001141 G2 box; other site 93059001142 G3 box; other site 93059001143 Switch II region; other site 93059001144 G4 box; other site 93059001145 G5 box; other site 93059001146 Cobalt transport protein; Region: CbiQ; cl00463 93059001147 Protein of unknown function (DUF3539); Region: DUF3539; pfam12058 93059001148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 93059001149 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 93059001150 catalytic residue [active] 93059001151 Protein of unknown function (DUF552); Region: DUF552; cl00775 93059001152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001153 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 93059001154 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 93059001155 H+ Antiporter protein; Region: 2A0121; TIGR00900 93059001156 Recombination protein O N terminal; Region: RecO_N; pfam11967 93059001157 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 93059001158 Recombination protein O C terminal; Region: RecO_C; pfam02565 93059001159 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 93059001160 intersubunit interface [polypeptide binding]; other site 93059001161 active site 93059001162 catalytic residue [active] 93059001163 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 93059001164 30S subunit binding site; other site 93059001165 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 93059001166 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 93059001167 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 93059001168 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 93059001169 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 93059001170 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 93059001171 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 93059001172 E3 interaction surface; other site 93059001173 lipoyl attachment site [posttranslational modification]; other site 93059001174 e3 binding domain; Region: E3_binding; pfam02817 93059001175 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 93059001176 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 93059001177 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 93059001178 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 93059001179 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 93059001180 dimer interface [polypeptide binding]; other site 93059001181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059001182 catalytic residue [active] 93059001183 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059001184 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059001185 catalytic residue [active] 93059001186 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 93059001187 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 93059001188 homodimer interface [polypeptide binding]; other site 93059001189 substrate-cofactor binding pocket; other site 93059001190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059001191 catalytic residue [active] 93059001192 ribosomal protein S4; Reviewed; Region: rps4; CHL00113 93059001193 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 93059001194 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 93059001195 RNA binding surface [nucleotide binding]; other site 93059001196 Domain of unknown function DUF37; Region: DUF37; cl00506 93059001197 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 93059001198 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 93059001199 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 93059001200 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 93059001201 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 93059001202 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 93059001203 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059001204 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059001205 catalytic residue [active] 93059001206 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 93059001207 S-adenosylmethionine binding site [chemical binding]; other site 93059001208 NifU-like domain; Region: NifU; cl00484 93059001209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001210 Predicted dehydrogenase [General function prediction only]; Region: COG0579 93059001211 GTP-binding protein LepA; Provisional; Region: PRK05433 93059001212 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 93059001213 G1 box; other site 93059001214 putative GEF interaction site [polypeptide binding]; other site 93059001215 GTP/Mg2+ binding site [chemical binding]; other site 93059001216 Switch I region; other site 93059001217 G2 box; other site 93059001218 G3 box; other site 93059001219 Switch II region; other site 93059001220 G4 box; other site 93059001221 G5 box; other site 93059001222 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 93059001223 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 93059001224 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 93059001225 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 93059001226 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 93059001227 dimer interface [polypeptide binding]; other site 93059001228 conserved gate region; other site 93059001229 ABC-ATPase subunit interface; other site 93059001230 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 93059001231 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 93059001232 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 93059001233 16S rRNA methyltransferase B; Provisional; Region: PRK14901 93059001234 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 93059001235 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 93059001236 S-adenosylmethionine binding site [chemical binding]; other site 93059001237 Transglycosylase; Region: Transgly; cl07896 93059001238 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 93059001239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 93059001240 UbiA prenyltransferase family; Region: UbiA; cl00337 93059001241 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 93059001242 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 93059001243 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 93059001244 substrate binding site [chemical binding]; other site 93059001245 glutamase interaction surface [polypeptide binding]; other site 93059001246 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 93059001247 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 93059001248 S-adenosylmethionine binding site [chemical binding]; other site 93059001249 Protein of unknown function (DUF721); Region: DUF721; cl02324 93059001250 PspA/IM30 family; Region: PspA_IM30; pfam04012 93059001251 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 93059001252 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 93059001253 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 93059001254 Walker A/P-loop; other site 93059001255 ATP binding site [chemical binding]; other site 93059001256 Q-loop/lid; other site 93059001257 ABC transporter signature motif; other site 93059001258 Walker B; other site 93059001259 D-loop; other site 93059001260 H-loop/switch region; other site 93059001261 NAD(P)H-quinone oxidoreductase subunit 2; Provisional; Region: PRK02504 93059001262 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 93059001263 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 93059001264 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 93059001265 active site 93059001266 interdomain interaction site; other site 93059001267 putative metal-binding site [ion binding]; other site 93059001268 nucleotide binding site [chemical binding]; other site 93059001269 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; cl11986 93059001270 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 93059001271 domain II; other site 93059001272 domain III; other site 93059001273 nucleotide binding site [chemical binding]; other site 93059001274 DNA binding groove [nucleotide binding] 93059001275 catalytic site [active] 93059001276 domain IV; other site 93059001277 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 93059001278 NaMN:DMB phosphoribosyltransferase [Coenzyme metabolism]; Region: CobT; COG2038 93059001279 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 93059001280 active site pocket [active] 93059001281 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 93059001282 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 93059001283 active site 93059001284 catalytic tetrad [active] 93059001285 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 93059001286 Lumazine binding domain; Region: Lum_binding; pfam00677 93059001287 Lumazine binding domain; Region: Lum_binding; pfam00677 93059001288 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; cd00386 93059001289 Subunit I/III interface [polypeptide binding]; other site 93059001290 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 93059001291 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 93059001292 D-pathway; other site 93059001293 Low-spin heme binding site [chemical binding]; other site 93059001294 Putative water exit pathway; other site 93059001295 Binuclear center (active site) [active] 93059001296 K-pathway; other site 93059001297 Putative proton exit pathway; other site 93059001298 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 93059001299 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 93059001300 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 93059001301 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 93059001302 UbiA prenyltransferase family; Region: UbiA; cl00337 93059001303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001304 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 93059001305 Walker A/P-loop; other site 93059001306 ATP binding site [chemical binding]; other site 93059001307 Q-loop/lid; other site 93059001308 ABC transporter signature motif; other site 93059001309 Walker B; other site 93059001310 D-loop; other site 93059001311 H-loop/switch region; other site 93059001312 ABC-2 type transporter; Region: ABC2_membrane; cl11417 93059001313 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 93059001314 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 93059001315 ring oligomerisation interface [polypeptide binding]; other site 93059001316 ATP/Mg binding site [chemical binding]; other site 93059001317 stacking interactions; other site 93059001318 hinge regions; other site 93059001319 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 93059001320 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 93059001321 NAD(P) binding site [chemical binding]; other site 93059001322 homotetramer interface [polypeptide binding]; other site 93059001323 homodimer interface [polypeptide binding]; other site 93059001324 active site 93059001325 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 93059001326 substrate binding site; other site 93059001327 dimer interface; other site 93059001328 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 93059001329 dimer interface [polypeptide binding]; other site 93059001330 catalytic triad [active] 93059001331 UbiA prenyltransferase family; Region: UbiA; cl00337 93059001332 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 93059001333 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 93059001334 Helix-turn-helix domains; Region: HTH; cl00088 93059001335 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 93059001336 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 93059001337 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 93059001338 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 93059001339 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 93059001340 Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium; Region: Rieske_cytochrome_b6f; cd03471 93059001341 cytochrome b subunit interaction site [polypeptide binding]; other site 93059001342 [2Fe-2S] cluster binding site [ion binding]; other site 93059001343 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 93059001344 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 93059001345 Domain of unknown function (DUF814); Region: DUF814; pfam05670 93059001346 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 93059001347 catalytic site [active] 93059001348 G-X2-G-X-G-K; other site 93059001349 Photosystem I reaction centre subunit IX / PsaJ; Region: PSI_PsaJ; cl03320 93059001350 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 93059001351 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 93059001352 putative glycoprotease GCP; Region: bact_gcp; TIGR03723 93059001353 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 93059001354 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 93059001355 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 93059001356 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 93059001357 HIGH motif; other site 93059001358 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 93059001359 active site 93059001360 KMSKS motif; other site 93059001361 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 93059001362 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 93059001363 active site 93059001364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001365 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 93059001366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001367 DRTGG domain; Region: DRTGG; cl12147 93059001368 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 93059001369 Protein of unknown function (DUF520); Region: DUF520; cl00723 93059001370 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 93059001371 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 93059001372 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 93059001373 inhibitor-cofactor binding pocket; inhibition site 93059001374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059001375 catalytic residue [active] 93059001376 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 93059001377 putative phosphate binding site [ion binding]; other site 93059001378 putative catalytic site [active] 93059001379 active site 93059001380 metal binding site A [ion binding]; metal-binding site 93059001381 DNA binding site [nucleotide binding] 93059001382 putative AP binding site [nucleotide binding]; other site 93059001383 putative metal binding site B [ion binding]; other site 93059001384 Protein of unknown function DUF111; Region: DUF111; cl03398 93059001385 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 93059001386 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 93059001387 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 93059001388 dimer interface [polypeptide binding]; other site 93059001389 conserved gate region; other site 93059001390 putative PBP binding loops; other site 93059001391 ABC-ATPase subunit interface; other site 93059001392 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 93059001393 dimer interface [polypeptide binding]; other site 93059001394 conserved gate region; other site 93059001395 putative PBP binding loops; other site 93059001396 ABC-ATPase subunit interface; other site 93059001397 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 93059001398 aromatic arch; other site 93059001399 DCoH dimer interaction site [polypeptide binding]; other site 93059001400 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 93059001401 DCoH tetramer interaction site [polypeptide binding]; other site 93059001402 substrate binding site [chemical binding]; other site 93059001403 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 93059001404 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 93059001405 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 93059001406 active site 93059001407 Zn binding site [ion binding]; other site 93059001408 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 93059001409 dimer interface [polypeptide binding]; other site 93059001410 substrate binding site [chemical binding]; other site 93059001411 metal binding sites [ion binding]; metal-binding site 93059001412 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 93059001413 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 93059001414 domain interfaces; other site 93059001415 active site 93059001416 RNA polymerase sigma factor RpoD; Validated; Region: PRK07406 93059001417 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 93059001418 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 93059001419 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 93059001420 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 93059001421 DNA binding residues [nucleotide binding] 93059001422 primosome assembly protein PriA; Validated; Region: PRK05580 93059001423 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 93059001424 ATP binding site [chemical binding]; other site 93059001425 putative Mg++ binding site [ion binding]; other site 93059001426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001427 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 93059001428 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 93059001429 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 93059001430 feedback inhibition sensing region; other site 93059001431 homohexameric interface [polypeptide binding]; other site 93059001432 nucleotide binding site [chemical binding]; other site 93059001433 N-acetyl-L-glutamate binding site [chemical binding]; other site 93059001434 Protein of unknown function (DUF2854); Region: DUF2854; pfam11016 93059001435 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 93059001436 ssDNA binding site [nucleotide binding]; other site 93059001437 dimer interface [polypeptide binding]; other site 93059001438 tetramer (dimer of dimers) interface [polypeptide binding]; other site 93059001439 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 93059001440 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 93059001441 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 93059001442 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 93059001443 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 93059001444 substrate binding site [chemical binding]; other site 93059001445 ATP binding site [chemical binding]; other site 93059001446 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 93059001447 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 93059001448 GDP-binding site [chemical binding]; other site 93059001449 ACT binding site; other site 93059001450 IMP binding site; other site 93059001451 photosystem II protein Psb27; Provisional; Region: PLN00064; cl11841 93059001452 prolyl-tRNA synthetase; Provisional; Region: PRK09194 93059001453 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 93059001454 dimer interface [polypeptide binding]; other site 93059001455 motif 1; other site 93059001456 active site 93059001457 motif 2; other site 93059001458 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 93059001459 putative deacylase active site [active] 93059001460 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 93059001461 active site 93059001462 motif 3; other site 93059001463 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 93059001464 anticodon binding site; other site 93059001465 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 93059001466 dimer interface [polypeptide binding]; other site 93059001467 substrate binding site [chemical binding]; other site 93059001468 metal binding sites [ion binding]; metal-binding site 93059001469 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 93059001470 ArsC family; Region: ArsC; pfam03960 93059001471 putative ArsC-like catalytic residues; other site 93059001472 putative TRX-like catalytic residues [active] 93059001473 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 93059001474 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 93059001475 Catalytic site [active] 93059001476 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 93059001477 dihydroorotase, multifunctional complex type; Region: pyrC_multi; TIGR00857 93059001478 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 93059001479 active site 93059001480 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 93059001481 catalytic core [active] 93059001482 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 93059001483 catalytic core [active] 93059001484 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 93059001485 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 93059001486 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 93059001487 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 93059001488 transaldolase-like protein; Provisional; Region: PTZ00411 93059001489 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 93059001490 active site 93059001491 dimer interface [polypeptide binding]; other site 93059001492 catalytic residue [active] 93059001493 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 93059001494 ribosome recycling factor; Reviewed; Region: frr; PRK00083 93059001495 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 93059001496 hinge region; other site 93059001497 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 93059001498 putative nucleotide binding site [chemical binding]; other site 93059001499 uridine monophosphate binding site [chemical binding]; other site 93059001500 homohexameric interface [polypeptide binding]; other site 93059001501 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 93059001502 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 93059001503 homodimer interface [polypeptide binding]; other site 93059001504 Walker A motif; other site 93059001505 ATP binding site [chemical binding]; other site 93059001506 hydroxycobalamin binding site [chemical binding]; other site 93059001507 Walker B motif; other site 93059001508 Phage integrase family; Region: Phage_integrase; pfam00589 93059001509 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 93059001510 DNA binding site [nucleotide binding] 93059001511 Int/Topo IB signature motif; other site 93059001512 active site 93059001513 catalytic residues [active] 93059001514 ferrochelatase; Reviewed; Region: hemH; PRK00035 93059001515 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 93059001516 C-terminal domain interface [polypeptide binding]; other site 93059001517 active site 93059001518 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 93059001519 active site 93059001520 N-terminal domain interface [polypeptide binding]; other site 93059001521 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 93059001522 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 93059001523 PYR/PP interface [polypeptide binding]; other site 93059001524 dimer interface [polypeptide binding]; other site 93059001525 TPP binding site [chemical binding]; other site 93059001526 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 93059001527 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 93059001528 TPP-binding site [chemical binding]; other site 93059001529 dimer interface [polypeptide binding]; other site 93059001530 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 93059001531 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 93059001532 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 93059001533 RNA binding site [nucleotide binding]; other site 93059001534 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 93059001535 RNA binding site [nucleotide binding]; other site 93059001536 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 93059001537 RNA binding site [nucleotide binding]; other site 93059001538 Creatinine amidohydrolase; Region: Creatininase; cl00618 93059001539 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 93059001540 dinuclear metal binding motif [ion binding]; other site 93059001541 acyl-ACP reductase; Provisional; Region: PRK14982 93059001542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001543 NAD(P) binding pocket [chemical binding]; other site 93059001544 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 93059001545 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 93059001546 classical (c) SDRs; Region: SDR_c; cd05233 93059001547 NAD(P) binding site [chemical binding]; other site 93059001548 active site 93059001549 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 93059001550 active site 93059001551 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 93059001552 active site 93059001553 putative substrate binding region [chemical binding]; other site 93059001554 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 93059001555 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 93059001556 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 93059001557 Photosystem I protein M (PsaM); Region: PsaM; cl15374 93059001558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001559 NAD(P) binding site [chemical binding]; other site 93059001560 active site 93059001561 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 93059001562 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 93059001563 P-loop; other site 93059001564 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 93059001565 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 93059001566 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 93059001567 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 93059001568 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 93059001569 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 93059001570 putative hexamer interface [polypeptide binding]; other site 93059001571 putative hexagonal pore; other site 93059001572 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 93059001573 putative hexamer interface [polypeptide binding]; other site 93059001574 putative hexagonal pore; other site 93059001575 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 93059001576 active site 93059001577 dimerization interface [polypeptide binding]; other site 93059001578 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 93059001579 Hexamer interface [polypeptide binding]; other site 93059001580 Hexagonal pore residue; other site 93059001581 Hexagonal pore; other site 93059001582 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 93059001583 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 93059001584 dimer interface [polypeptide binding]; other site 93059001585 catalytic residue [active] 93059001586 metal binding site [ion binding]; metal-binding site 93059001587 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 93059001588 multimerization interface [polypeptide binding]; other site 93059001589 Carboxysome shell peptide mid-region; Region: CsoS2_M; pfam12288 93059001590 Carboxysome shell peptide mid-region; Region: CsoS2_M; pfam12288 93059001591 Carboxysome Shell Carbonic Anhydrase; Region: CsoSCA; cl07510 93059001592 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 93059001593 Hexamer/Pentamer interface [polypeptide binding]; other site 93059001594 central pore; other site 93059001595 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 93059001596 Hexamer/Pentamer interface [polypeptide binding]; other site 93059001597 central pore; other site 93059001598 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 93059001599 Hexamer interface [polypeptide binding]; other site 93059001600 Hexagonal pore residue; other site 93059001601 Hexagonal pore; other site 93059001602 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 93059001603 aromatic arch; other site 93059001604 DCoH dimer interaction site [polypeptide binding]; other site 93059001605 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 93059001606 DCoH tetramer interaction site [polypeptide binding]; other site 93059001607 substrate binding site [chemical binding]; other site 93059001608 Protein of unknown function (DUF3136); Region: DUF3136; pfam11334 93059001609 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 93059001610 homotrimer interaction site [polypeptide binding]; other site 93059001611 putative active site [active] 93059001612 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 93059001613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059001614 ATP phosphoribosyltransferase; Region: HisG; cl15266 93059001615 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 93059001616 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 93059001617 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 93059001618 Walker A/P-loop; other site 93059001619 ATP binding site [chemical binding]; other site 93059001620 Q-loop/lid; other site 93059001621 ABC transporter signature motif; other site 93059001622 Walker B; other site 93059001623 D-loop; other site 93059001624 H-loop/switch region; other site 93059001625 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 93059001626 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 93059001627 Coenzyme A binding pocket [chemical binding]; other site 93059001628 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 93059001629 Probable Catalytic site; other site 93059001630 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 93059001631 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 93059001632 hypothetical protein; Validated; Region: PRK06672 93059001633 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 93059001634 Walker A motif; other site 93059001635 ATP binding site [chemical binding]; other site 93059001636 Walker B motif; other site 93059001637 arginine finger; other site 93059001638 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 93059001639 DnaA box-binding interface [nucleotide binding]; other site 93059001640 Putative ParB-like nuclease; Region: ParBc_2; cl01772 93059001641 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 93059001642 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 93059001643 C-terminal domain interface [polypeptide binding]; other site 93059001644 GSH binding site (G-site) [chemical binding]; other site 93059001645 dimer interface [polypeptide binding]; other site 93059001646 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 93059001647 N-terminal domain interface [polypeptide binding]; other site 93059001648 dimer interface [polypeptide binding]; other site 93059001649 substrate binding pocket (H-site) [chemical binding]; other site 93059001650 glutathione reductase; Validated; Region: PRK06116 93059001651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001652 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 93059001653 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 93059001654 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 93059001655 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 93059001656 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 93059001657 active site 93059001658 substrate binding pocket [chemical binding]; other site 93059001659 dimer interface [polypeptide binding]; other site 93059001660 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 93059001661 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 93059001662 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 93059001663 substrate binding site [chemical binding]; other site 93059001664 active site 93059001665 catalytic residues [active] 93059001666 heterodimer interface [polypeptide binding]; other site 93059001667 YCII-related domain; Region: YCII; cl00999 93059001668 Cytochrome c; Region: Cytochrom_C; cl11414 93059001669 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 93059001670 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 93059001671 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 93059001672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 93059001673 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 93059001674 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 93059001675 DNA binding residues [nucleotide binding] 93059001676 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 93059001677 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 93059001678 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 93059001679 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 93059001680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001681 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 93059001682 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 93059001683 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 93059001684 Photosystem II protein Y (PsbY); Region: PsbY; cl05675 93059001685 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 93059001686 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 93059001687 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 93059001688 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 93059001689 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 93059001690 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 93059001691 Catalytic site; other site 93059001692 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 93059001693 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 93059001694 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 93059001695 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 93059001696 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 93059001697 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 93059001698 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 93059001699 catalytic triad [active] 93059001700 V-type ATP synthase subunit I; Validated; Region: PRK05771 93059001701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 93059001702 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 93059001703 PQ loop repeat; Region: PQ-loop; cl12056 93059001704 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 93059001705 conserved hypothetical protein, TIGR03894 family; Region: chp_P_marinus_1 93059001706 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 93059001707 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 93059001708 putative di-iron ligands [ion binding]; other site 93059001709 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 93059001710 ParA-like protein; Provisional; Region: PHA02518 93059001711 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 93059001712 P-loop; other site 93059001713 Magnesium ion binding site [ion binding]; other site 93059001714 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 93059001715 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 93059001716 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 93059001717 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 93059001718 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 93059001719 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 93059001720 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 93059001721 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 93059001722 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 93059001723 active site 93059001724 homodimer interface [polypeptide binding]; other site 93059001725 catalytic site [active] 93059001726 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 93059001727 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 93059001728 active site 93059001729 motif I; other site 93059001730 motif II; other site 93059001731 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 93059001732 D-glycerate 3-kinase; Provisional; Region: PLN03046 93059001733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001734 active site 93059001735 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 93059001736 T5orf172 domain; Region: T5orf172; cl11176 93059001737 Bacitracin resistance protein BacA; Region: BacA; cl00858 93059001738 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 93059001739 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 93059001740 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 93059001741 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 93059001742 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 93059001743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001744 Walker A/P-loop; other site 93059001745 ATP binding site [chemical binding]; other site 93059001746 Q-loop/lid; other site 93059001747 ABC transporter signature motif; other site 93059001748 Walker B; other site 93059001749 D-loop; other site 93059001750 H-loop/switch region; other site 93059001751 Protein of unknown function (DUF3288); Region: DUF3288; pfam11691 93059001752 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 93059001753 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 93059001754 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 93059001755 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 93059001756 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 93059001757 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 93059001758 catalytic site [active] 93059001759 subunit interface [polypeptide binding]; other site 93059001760 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 93059001761 anti sigma factor interaction site; other site 93059001762 regulatory phosphorylation site [posttranslational modification]; other site 93059001763 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; cl00258 93059001764 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 93059001765 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 93059001766 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 93059001767 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 93059001768 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 93059001769 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 93059001770 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK07374 93059001771 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 93059001772 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 93059001773 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 93059001774 generic binding surface I; other site 93059001775 generic binding surface II; other site 93059001776 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 93059001777 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 93059001778 16S/18S rRNA binding site [nucleotide binding]; other site 93059001779 S13e-L30e interaction site [polypeptide binding]; other site 93059001780 25S rRNA binding site [nucleotide binding]; other site 93059001781 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 93059001782 RuvA N terminal domain; Region: RuvA_N; pfam01330 93059001783 EamA-like transporter family; Region: EamA; cl01037 93059001784 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 93059001785 EamA-like transporter family; Region: EamA; cl01037 93059001786 DNA primase; Validated; Region: dnaG; PRK05667 93059001787 CHC2 zinc finger; Region: zf-CHC2; cl15369 93059001788 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 93059001789 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 93059001790 active site 93059001791 metal binding site [ion binding]; metal-binding site 93059001792 interdomain interaction site; other site 93059001793 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 93059001794 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 93059001795 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 93059001796 active site 93059001797 DNA binding site [nucleotide binding] 93059001798 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 93059001799 Catalytic site [active] 93059001800 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 93059001801 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059001802 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK02534 93059001803 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 93059001804 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 93059001805 Protein of unknown function (DUF3082); Region: DUF3082; pfam11282 93059001806 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 93059001807 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 93059001808 alpha subunit interface [polypeptide binding]; other site 93059001809 TPP binding site [chemical binding]; other site 93059001810 heterodimer interface [polypeptide binding]; other site 93059001811 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 93059001812 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 93059001813 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 93059001814 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 93059001815 Protein export membrane protein; Region: SecD_SecF; cl14618 93059001816 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 93059001817 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 93059001818 Protein export membrane protein; Region: SecD_SecF; cl14618 93059001819 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 93059001820 Domain of unknown function DUF20; Region: UPF0118; cl00465 93059001821 Psb28 protein; Region: Psb28; cl04326 93059001822 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 93059001823 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 93059001824 active site residue [active] 93059001825 GUN4-like; Region: GUN4; pfam05419 93059001826 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 93059001827 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 93059001828 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 93059001829 active site 93059001830 substrate binding site [chemical binding]; other site 93059001831 catalytic site [active] 93059001832 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 93059001833 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 93059001834 dimer interface [polypeptide binding]; other site 93059001835 motif 1; other site 93059001836 active site 93059001837 motif 2; other site 93059001838 motif 3; other site 93059001839 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 93059001840 anticodon binding site; other site 93059001841 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 93059001842 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 93059001843 DNA binding residues [nucleotide binding] 93059001844 Photosystem II protein; Region: PSII; cl08223 93059001845 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 93059001846 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 93059001847 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 93059001848 putative N-terminal domain interface [polypeptide binding]; other site 93059001849 putative dimer interface [polypeptide binding]; other site 93059001850 putative substrate binding pocket (H-site) [chemical binding]; other site 93059001851 T5orf172 domain; Region: T5orf172; cl11176 93059001852 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 93059001853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001854 NAD(P) binding site [chemical binding]; other site 93059001855 active site 93059001856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001857 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 93059001858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001859 NAD(P) binding site [chemical binding]; other site 93059001860 active site 93059001861 Mechanosensitive ion channel; Region: MS_channel; pfam00924 93059001862 Isochorismatase family; Region: Isochorismatase; pfam00857 93059001863 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 93059001864 catalytic triad [active] 93059001865 dimer interface [polypeptide binding]; other site 93059001866 conserved cis-peptide bond; other site 93059001867 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 93059001868 metal binding site 2 [ion binding]; metal-binding site 93059001869 putative DNA binding helix; other site 93059001870 metal binding site 1 [ion binding]; metal-binding site 93059001871 dimer interface [polypeptide binding]; other site 93059001872 structural Zn2+ binding site [ion binding]; other site 93059001873 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 93059001874 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 93059001875 FeS/SAM binding site; other site 93059001876 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 93059001877 glucosylglycerol 3-phosphatase; Region: salt_tol_Pase; TIGR02399 93059001878 Glucosylglycerol-phosphate phosphatase (Salt_tol_Pase); Region: Salt_tol_Pase; pfam09506 93059001879 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 93059001880 Phosphotransferase enzyme family; Region: APH; pfam01636 93059001881 active site 93059001882 substrate binding site [chemical binding]; other site 93059001883 ATP binding site [chemical binding]; other site 93059001884 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 93059001885 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 93059001886 homodimer interface [polypeptide binding]; other site 93059001887 substrate-cofactor binding pocket; other site 93059001888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059001889 catalytic residue [active] 93059001890 Homoserine O-succinyltransferase; Region: HTS; pfam04204 93059001891 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 93059001892 proposed active site lysine [active] 93059001893 conserved cys residue [active] 93059001894 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 93059001895 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 93059001896 Permease family; Region: Xan_ur_permease; cl00967 93059001897 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 93059001898 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 93059001899 FAD binding domain; Region: FAD_binding_4; pfam01565 93059001900 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 93059001901 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 93059001902 putative active site [active] 93059001903 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 93059001904 putative active site [active] 93059001905 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 93059001906 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 93059001907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059001908 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 93059001909 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 93059001910 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059001911 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 93059001912 NmrA-like family; Region: NmrA; pfam05368 93059001913 NADP binding site [chemical binding]; other site 93059001914 active site 93059001915 regulatory binding site [polypeptide binding]; other site 93059001916 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 93059001917 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 93059001918 CotH protein; Region: CotH; pfam08757 93059001919 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 93059001920 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 93059001921 putative metal binding residues [ion binding]; other site 93059001922 signature motif; other site 93059001923 dimer interface [polypeptide binding]; other site 93059001924 polyP binding site; other site 93059001925 active site 93059001926 substrate binding site [chemical binding]; other site 93059001927 acceptor-phosphate pocket; other site 93059001928 Protein of unknown function (DUF1662); Region: DUF1662; pfam07878 93059001929 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 93059001930 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 93059001931 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 93059001932 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 93059001933 S-adenosylmethionine binding site [chemical binding]; other site 93059001934 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 93059001935 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 93059001936 G1 box; other site 93059001937 putative GEF interaction site [polypeptide binding]; other site 93059001938 GTP/Mg2+ binding site [chemical binding]; other site 93059001939 Switch I region; other site 93059001940 G2 box; other site 93059001941 G3 box; other site 93059001942 Switch II region; other site 93059001943 G4 box; other site 93059001944 G5 box; other site 93059001945 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 93059001946 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 93059001947 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 93059001948 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 93059001949 dimerization interface [polypeptide binding]; other site 93059001950 domain crossover interface; other site 93059001951 redox-dependent activation switch; other site 93059001952 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059001953 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 93059001954 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 93059001955 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 93059001956 Walker A/P-loop; other site 93059001957 ATP binding site [chemical binding]; other site 93059001958 Q-loop/lid; other site 93059001959 ABC transporter signature motif; other site 93059001960 Walker B; other site 93059001961 D-loop; other site 93059001962 H-loop/switch region; other site 93059001963 Protein of unknown function (DUF3531); Region: DUF3531; pfam12049 93059001964 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 93059001965 Integral membrane protein DUF92; Region: DUF92; cl00793 93059001966 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_3; cd01835 93059001967 active site 93059001968 catalytic triad [active] 93059001969 oxyanion hole [active] 93059001970 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 93059001971 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 93059001972 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 93059001973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059001974 Walker A/P-loop; other site 93059001975 ATP binding site [chemical binding]; other site 93059001976 Q-loop/lid; other site 93059001977 ABC transporter signature motif; other site 93059001978 Walker B; other site 93059001979 D-loop; other site 93059001980 H-loop/switch region; other site 93059001981 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 93059001982 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 93059001983 aspartate aminotransferase; Provisional; Region: PRK05764 93059001984 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 93059001985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059001986 homodimer interface [polypeptide binding]; other site 93059001987 catalytic residue [active] 93059001988 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 93059001989 active site 93059001990 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 93059001991 Fe-S cluster binding site [ion binding]; other site 93059001992 active site 93059001993 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 93059001994 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 93059001995 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 93059001996 C-terminal peptidase (prc); Region: prc; TIGR00225 93059001997 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 93059001998 protein binding site [polypeptide binding]; other site 93059001999 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 93059002000 Catalytic dyad [active] 93059002001 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 93059002002 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 93059002003 Quinolinate synthetase A protein; Region: NadA; cl00420 93059002004 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 93059002005 Myxococcus xanthus DevT and related proteins, metallophosphatase domain; Region: MPP_DevT; cd07397 93059002006 putative active site [active] 93059002007 putative metal binding site [ion binding]; other site 93059002008 Domain of unknown function (DUF477); Region: DUF477; cl01535 93059002009 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 93059002010 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 93059002011 active site 93059002012 dimer interface [polypeptide binding]; other site 93059002013 metal binding site [ion binding]; metal-binding site 93059002014 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 93059002015 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059002016 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 93059002017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002018 Protein of unknown function (DUF1651); Region: DUF1651; pfam07864 93059002019 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059002020 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 93059002021 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 93059002022 Protein of unknown function (DUF3104); Region: DUF3104; pfam11302 93059002023 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 93059002024 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 93059002025 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 93059002026 Uncharacterised conserved protein (DUF2369); Region: DUF2369; pfam10179 93059002027 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 93059002028 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 93059002029 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 93059002030 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 93059002031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002032 Walker A motif; other site 93059002033 ATP binding site [chemical binding]; other site 93059002034 Walker B motif; other site 93059002035 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 93059002036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002037 Walker A motif; other site 93059002038 ATP binding site [chemical binding]; other site 93059002039 Walker B motif; other site 93059002040 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 93059002041 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 93059002042 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 93059002043 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 93059002044 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 93059002045 PetN; Region: PetN; cl15376 93059002046 Thylakoid formation protein; Region: ThylakoidFormat; cl12138 93059002047 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 93059002048 oligomer interface [polypeptide binding]; other site 93059002049 active site residues [active] 93059002050 cell division protein; Validated; Region: ftsH; CHL00176 93059002051 FtsH Extracellular; Region: FtsH_ext; pfam06480 93059002052 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 93059002053 Walker A motif; other site 93059002054 ATP binding site [chemical binding]; other site 93059002055 Walker B motif; other site 93059002056 arginine finger; other site 93059002057 Peptidase family M41; Region: Peptidase_M41; pfam01434 93059002058 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 93059002059 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 93059002060 pyruvate kinase; Provisional; Region: PRK06354 93059002061 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 93059002062 domain interfaces; other site 93059002063 active site 93059002064 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 93059002065 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 93059002066 YGGT family; Region: YGGT; cl00508 93059002067 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 93059002068 threonine dehydratase; Reviewed; Region: PRK09224 93059002069 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 93059002070 tetramer interface [polypeptide binding]; other site 93059002071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059002072 catalytic residue [active] 93059002073 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 93059002074 putative Ile/Val binding site [chemical binding]; other site 93059002075 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 93059002076 putative Ile/Val binding site [chemical binding]; other site 93059002077 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 93059002078 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 93059002079 TPP-binding site; other site 93059002080 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 93059002081 PYR/PP interface [polypeptide binding]; other site 93059002082 dimer interface [polypeptide binding]; other site 93059002083 TPP binding site [chemical binding]; other site 93059002084 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 93059002085 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 93059002086 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 93059002087 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 93059002088 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 93059002089 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 93059002090 catalytic triad [active] 93059002091 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 93059002092 heat shock protein 90; Provisional; Region: PRK05218 93059002093 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 93059002094 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 93059002095 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 93059002096 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 93059002097 dimer interface [polypeptide binding]; other site 93059002098 motif 1; other site 93059002099 active site 93059002100 motif 2; other site 93059002101 motif 3; other site 93059002102 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 93059002103 active site 93059002104 dimerization interface [polypeptide binding]; other site 93059002105 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14259 93059002106 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 93059002107 Walker A/P-loop; other site 93059002108 ATP binding site [chemical binding]; other site 93059002109 Q-loop/lid; other site 93059002110 ABC transporter signature motif; other site 93059002111 Walker B; other site 93059002112 D-loop; other site 93059002113 H-loop/switch region; other site 93059002114 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 93059002115 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 93059002116 dimer interface [polypeptide binding]; other site 93059002117 conserved gate region; other site 93059002118 putative PBP binding loops; other site 93059002119 ABC-ATPase subunit interface; other site 93059002120 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 93059002121 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 93059002122 dimer interface [polypeptide binding]; other site 93059002123 conserved gate region; other site 93059002124 putative PBP binding loops; other site 93059002125 ABC-ATPase subunit interface; other site 93059002126 molecular chaperone DnaK; Provisional; Region: PRK13410 93059002127 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 93059002128 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 93059002129 HSP70 interaction site [polypeptide binding]; other site 93059002130 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 93059002131 substrate binding site [polypeptide binding]; other site 93059002132 dimer interface [polypeptide binding]; other site 93059002133 Protein of unknown function (DUF3110); Region: DUF3110; pfam11360 93059002134 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 93059002135 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 93059002136 putative active site [active] 93059002137 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 93059002138 active site 93059002139 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional; Region: PRK09319 93059002140 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 93059002141 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 93059002142 dimerization interface [polypeptide binding]; other site 93059002143 active site 93059002144 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 93059002145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002146 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 93059002147 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 93059002148 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 93059002149 active site 93059002150 substrate binding site [chemical binding]; other site 93059002151 cosubstrate binding site; other site 93059002152 catalytic site [active] 93059002153 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 93059002154 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 93059002155 dimer interface [polypeptide binding]; other site 93059002156 active site 93059002157 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 93059002158 dimer interface [polypeptide binding]; other site 93059002159 active site 93059002160 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 93059002161 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 93059002162 HIGH motif; other site 93059002163 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 93059002164 active site 93059002165 KMSKS motif; other site 93059002166 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 93059002167 tRNA binding surface [nucleotide binding]; other site 93059002168 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 93059002169 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 93059002170 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 93059002171 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 93059002172 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 93059002173 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059002174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059002175 catalytic residue [active] 93059002176 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 93059002177 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 93059002178 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 93059002179 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 93059002180 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 93059002181 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 93059002182 active site 93059002183 (T/H)XGH motif; other site 93059002184 Flavin Reductases; Region: FlaRed; cl00801 93059002185 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 93059002186 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 93059002187 GIY-YIG motif/motif A; other site 93059002188 active site 93059002189 catalytic site [active] 93059002190 putative DNA binding site [nucleotide binding]; other site 93059002191 metal binding site [ion binding]; metal-binding site 93059002192 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 93059002193 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 93059002194 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 93059002195 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 93059002196 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 93059002197 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 93059002198 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 93059002199 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 93059002200 homodimer interface [polypeptide binding]; other site 93059002201 substrate-cofactor binding pocket; other site 93059002202 Aminotransferase class IV; Region: Aminotran_4; pfam01063 93059002203 catalytic residue [active] 93059002204 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 93059002205 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 93059002206 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 93059002207 substrate binding pocket [chemical binding]; other site 93059002208 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 93059002209 B12 binding site [chemical binding]; other site 93059002210 cobalt ligand [ion binding]; other site 93059002211 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 93059002212 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 93059002213 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 93059002214 ATP adenylyltransferase; Region: ATP_transf; pfam09830 93059002215 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 93059002216 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 93059002217 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 93059002218 putative tRNA-binding site [nucleotide binding]; other site 93059002219 B3/4 domain; Region: B3_4; cl11458 93059002220 tRNA synthetase B5 domain; Region: B5; cl08394 93059002221 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 93059002222 dimer interface [polypeptide binding]; other site 93059002223 motif 1; other site 93059002224 motif 3; other site 93059002225 motif 2; other site 93059002226 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 93059002227 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 93059002228 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 93059002229 RNB domain; Region: RNB; pfam00773 93059002230 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 93059002231 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 93059002232 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 93059002233 active site 93059002234 HIGH motif; other site 93059002235 KMSKS motif; other site 93059002236 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 93059002237 tRNA binding surface [nucleotide binding]; other site 93059002238 anticodon binding site; other site 93059002239 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 93059002240 Protein of unknown function (DUF2930); Region: DUF2930; pfam11152 93059002241 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 93059002242 homotrimer interface [polypeptide binding]; other site 93059002243 Walker A motif; other site 93059002244 GTP binding site [chemical binding]; other site 93059002245 Walker B motif; other site 93059002246 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 93059002247 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 93059002248 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 93059002249 dimer interface [polypeptide binding]; other site 93059002250 decamer (pentamer of dimers) interface [polypeptide binding]; other site 93059002251 catalytic triad [active] 93059002252 peroxidatic and resolving cysteines [active] 93059002253 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 93059002254 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 93059002255 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 93059002256 Walker A motif; other site 93059002257 ATP binding site [chemical binding]; other site 93059002258 Walker B motif; other site 93059002259 arginine finger; other site 93059002260 Peptidase family M41; Region: Peptidase_M41; pfam01434 93059002261 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 93059002262 Protein of unknown function (DUF565); Region: DUF565; pfam04483 93059002263 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 93059002264 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 93059002265 motif II; other site 93059002266 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 93059002267 DHH family; Region: DHH; pfam01368 93059002268 DHHA1 domain; Region: DHHA1; pfam02272 93059002269 similar to hypothetical protein 93059002270 Flagellin N-methylase; Region: FliB; cl00497 93059002271 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 93059002272 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 93059002273 Exoribonuclease R [Transcription]; Region: VacB; COG0557 93059002274 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 93059002275 RNB domain; Region: RNB; pfam00773 93059002276 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 93059002277 RNA binding site [nucleotide binding]; other site 93059002278 aromatic acid decarboxylase; Validated; Region: PRK05920 93059002279 Flavoprotein; Region: Flavoprotein; cl08021 93059002280 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 93059002281 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 93059002282 dinuclear metal binding motif [ion binding]; other site 93059002283 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 93059002284 catalytic loop [active] 93059002285 iron binding site [ion binding]; other site 93059002286 Protein of unknown function (DUF2488); Region: Ycf54; pfam10674 93059002287 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 93059002288 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 93059002289 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 93059002290 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 93059002291 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 93059002292 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 93059002293 putative active site [active] 93059002294 substrate binding site [chemical binding]; other site 93059002295 putative cosubstrate binding site; other site 93059002296 catalytic site [active] 93059002297 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 93059002298 substrate binding site [chemical binding]; other site 93059002299 Integral membrane protein TerC family; Region: TerC; cl10468 93059002300 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 93059002301 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 93059002302 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 93059002303 ATP binding site [chemical binding]; other site 93059002304 putative Mg++ binding site [ion binding]; other site 93059002305 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 93059002306 nucleotide binding region [chemical binding]; other site 93059002307 ATP-binding site [chemical binding]; other site 93059002308 TRCF domain; Region: TRCF; cl04088 93059002309 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 93059002310 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 93059002311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002312 dihydrodipicolinate reductase; Provisional; Region: PRK00048 93059002313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002314 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 93059002315 magnesium chelatase subunit H; Provisional; Region: PRK12493 93059002316 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 93059002317 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 93059002318 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 93059002319 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 93059002320 dihydropteroate synthase; Region: DHPS; TIGR01496 93059002321 substrate binding pocket [chemical binding]; other site 93059002322 dimer interface [polypeptide binding]; other site 93059002323 inhibitor binding site; inhibition site 93059002324 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 93059002325 substrate binding site [chemical binding]; other site 93059002326 dimer interface [polypeptide binding]; other site 93059002327 catalytic triad [active] 93059002328 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 93059002329 RNA binding surface [nucleotide binding]; other site 93059002330 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 93059002331 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 93059002332 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002333 Walker A/P-loop; other site 93059002334 ATP binding site [chemical binding]; other site 93059002335 Q-loop/lid; other site 93059002336 ABC transporter signature motif; other site 93059002337 Walker B; other site 93059002338 D-loop; other site 93059002339 H-loop/switch region; other site 93059002340 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 93059002341 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 93059002342 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059002343 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 93059002344 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059002345 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 93059002346 IMP binding site; other site 93059002347 dimer interface [polypeptide binding]; other site 93059002348 interdomain contacts; other site 93059002349 partial ornithine binding site; other site 93059002350 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 93059002351 Domain of unknown function DUF143; Region: DUF143; cl00519 93059002352 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 93059002353 L-asparaginase II; Region: Asparaginase_II; cl01842 93059002354 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 93059002355 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 93059002356 [2Fe-2S] cluster binding site [ion binding]; other site 93059002357 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 93059002358 hydrophobic ligand binding site; other site 93059002359 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 93059002360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002361 Walker A/P-loop; other site 93059002362 ATP binding site [chemical binding]; other site 93059002363 Q-loop/lid; other site 93059002364 ABC transporter signature motif; other site 93059002365 Walker B; other site 93059002366 D-loop; other site 93059002367 H-loop/switch region; other site 93059002368 tartrate dehydrogenase; Provisional; Region: PRK08194 93059002369 Photosystem II protein; Region: PSII; cl08223 93059002370 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 93059002371 Helix-turn-helix domains; Region: HTH; cl00088 93059002372 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 93059002373 Ferritin-like domain; Region: Ferritin; pfam00210 93059002374 ferroxidase diiron center [ion binding]; other site 93059002375 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 93059002376 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 93059002377 Walker A/P-loop; other site 93059002378 ATP binding site [chemical binding]; other site 93059002379 Q-loop/lid; other site 93059002380 ABC transporter signature motif; other site 93059002381 Walker B; other site 93059002382 D-loop; other site 93059002383 H-loop/switch region; other site 93059002384 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 93059002385 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 93059002386 minor groove reading motif; other site 93059002387 helix-hairpin-helix signature motif; other site 93059002388 substrate binding pocket [chemical binding]; other site 93059002389 active site 93059002390 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 93059002391 NAD(P) binding site [chemical binding]; other site 93059002392 putative active site [active] 93059002393 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 93059002394 Coenzyme A binding pocket [chemical binding]; other site 93059002395 Domain of unknown function (DUF296); Region: DUF296; cl00720 93059002396 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 93059002397 GSH binding site [chemical binding]; other site 93059002398 catalytic residues [active] 93059002399 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 93059002400 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 93059002401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002402 NAD(P) binding site [chemical binding]; other site 93059002403 active site 93059002404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002405 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 93059002406 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 93059002407 catalytic residues [active] 93059002408 Protein of unknown function (DUF3685); Region: DUF3685; pfam12452 93059002409 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 93059002410 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 93059002411 Protein of unknown function (DUF3727); Region: DUF3727; pfam12527 93059002412 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 93059002413 active site 93059002414 motif I; other site 93059002415 motif II; other site 93059002416 gamma-glutamyl kinase; Provisional; Region: PRK05429 93059002417 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 93059002418 nucleotide binding site [chemical binding]; other site 93059002419 homotetrameric interface [polypeptide binding]; other site 93059002420 putative phosphate binding site [ion binding]; other site 93059002421 putative allosteric binding site; other site 93059002422 PUA domain; Region: PUA; cl00607 93059002423 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 93059002424 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 93059002425 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 93059002426 trimer interface [polypeptide binding]; other site 93059002427 active site 93059002428 UDP-GlcNAc binding site [chemical binding]; other site 93059002429 lipid binding site [chemical binding]; lipid-binding site 93059002430 tartrate dehydrogenase; Provisional; Region: PRK08194 93059002431 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 93059002432 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 93059002433 active site 93059002434 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 93059002435 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 93059002436 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 93059002437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002438 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 93059002439 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 93059002440 hypothetical protein; Provisional; Region: PRK08185 93059002441 intersubunit interface [polypeptide binding]; other site 93059002442 active site 93059002443 zinc binding site [ion binding]; other site 93059002444 Na+ binding site [ion binding]; other site 93059002445 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 93059002446 putative active site [active] 93059002447 catalytic triad [active] 93059002448 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 93059002449 chaperone protein DnaJ; Provisional; Region: PRK14276 93059002450 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 93059002451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002452 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 93059002453 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 93059002454 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059002455 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059002456 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059002457 Dehydratase family; Region: ILVD_EDD; cl00340 93059002458 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 93059002459 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 93059002460 putative active site [active] 93059002461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002462 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 93059002463 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 93059002464 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 93059002465 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 93059002466 ligand binding site; other site 93059002467 oligomer interface; other site 93059002468 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 93059002469 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 93059002470 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 93059002471 dimer interface [polypeptide binding]; other site 93059002472 N-terminal domain interface [polypeptide binding]; other site 93059002473 sulfate 1 binding site; other site 93059002474 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 93059002475 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 93059002476 tRNA; other site 93059002477 putative tRNA binding site [nucleotide binding]; other site 93059002478 putative NADP binding site [chemical binding]; other site 93059002479 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 93059002480 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 93059002481 putative active site [active] 93059002482 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 93059002483 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 93059002484 substrate binding site [chemical binding]; other site 93059002485 hexamer interface [polypeptide binding]; other site 93059002486 metal binding site [ion binding]; metal-binding site 93059002487 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 93059002488 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 93059002489 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 93059002490 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 93059002491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002492 Walker A/P-loop; other site 93059002493 ATP binding site [chemical binding]; other site 93059002494 Q-loop/lid; other site 93059002495 ABC transporter signature motif; other site 93059002496 Walker B; other site 93059002497 D-loop; other site 93059002498 H-loop/switch region; other site 93059002499 Domain of unknown function (DUF309); Region: DUF309; cl00667 93059002500 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 93059002501 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 93059002502 G1 box; other site 93059002503 putative GEF interaction site [polypeptide binding]; other site 93059002504 GTP/Mg2+ binding site [chemical binding]; other site 93059002505 Switch I region; other site 93059002506 G2 box; other site 93059002507 G3 box; other site 93059002508 Switch II region; other site 93059002509 G4 box; other site 93059002510 G5 box; other site 93059002511 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 93059002512 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 93059002513 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 93059002514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002515 geranylgeranyl reductase; Region: ChlP; TIGR02028 93059002516 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 93059002517 sulfite reductase subunit beta; Provisional; Region: PRK13504 93059002518 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 93059002519 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 93059002520 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 93059002521 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 93059002522 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 93059002523 generic binding surface II; other site 93059002524 ssDNA binding site; other site 93059002525 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 93059002526 ATP binding site [chemical binding]; other site 93059002527 putative Mg++ binding site [ion binding]; other site 93059002528 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 93059002529 nucleotide binding region [chemical binding]; other site 93059002530 ATP-binding site [chemical binding]; other site 93059002531 elongation factor Ts; Reviewed; Region: tsf; PRK12332 93059002532 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 93059002533 Elongation factor TS; Region: EF_TS; pfam00889 93059002534 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 93059002535 rRNA interaction site [nucleotide binding]; other site 93059002536 S8 interaction site; other site 93059002537 putative laminin-1 binding site; other site 93059002538 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 93059002539 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 93059002540 active site 93059002541 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 93059002542 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 93059002543 Walker A/P-loop; other site 93059002544 ATP binding site [chemical binding]; other site 93059002545 Q-loop/lid; other site 93059002546 ABC transporter signature motif; other site 93059002547 Walker B; other site 93059002548 D-loop; other site 93059002549 H-loop/switch region; other site 93059002550 DevC protein; Region: devC; TIGR01185 93059002551 FtsX-like permease family; Region: FtsX; pfam02687 93059002552 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 93059002553 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 93059002554 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 93059002555 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 93059002556 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 93059002557 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 93059002558 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 93059002559 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 93059002560 Protein of unknown function (DUF3148); Region: DUF3148; pfam11347 93059002561 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 93059002562 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 93059002563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002564 GTP/Mg2+ binding site [chemical binding]; other site 93059002565 G5 box; other site 93059002566 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 93059002567 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 93059002568 G1 box; other site 93059002569 G1 box; other site 93059002570 GTP/Mg2+ binding site [chemical binding]; other site 93059002571 Switch I region; other site 93059002572 Switch I region; other site 93059002573 G2 box; other site 93059002574 G2 box; other site 93059002575 Switch II region; other site 93059002576 G3 box; other site 93059002577 G3 box; other site 93059002578 Switch II region; other site 93059002579 G4 box; other site 93059002580 G5 box; other site 93059002581 Domain of unknown function (DUF697); Region: DUF697; cl12064 93059002582 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059002583 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059002584 catalytic residue [active] 93059002585 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 93059002586 nucleoside/Zn binding site; other site 93059002587 dimer interface [polypeptide binding]; other site 93059002588 catalytic motif [active] 93059002589 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 93059002590 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 93059002591 homodimer interface [polypeptide binding]; other site 93059002592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059002593 catalytic residue [active] 93059002594 glutamine synthetase, type I; Region: GlnA; TIGR00653 93059002595 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 93059002596 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 93059002597 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 93059002598 S-adenosylmethionine binding site [chemical binding]; other site 93059002599 acetyl-CoA synthetase; Provisional; Region: PRK00174 93059002600 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 93059002601 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 93059002602 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 93059002603 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 93059002604 substrate binding pocket [chemical binding]; other site 93059002605 chain length determination region; other site 93059002606 substrate-Mg2+ binding site; other site 93059002607 catalytic residues [active] 93059002608 aspartate-rich region 1; other site 93059002609 active site lid residues [active] 93059002610 aspartate-rich region 2; other site 93059002611 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 93059002612 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 93059002613 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 93059002614 active site 93059002615 metal binding site [ion binding]; metal-binding site 93059002616 Predicted amidohydrolase [General function prediction only]; Region: COG0388 93059002617 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 93059002618 putative active site [active] 93059002619 catalytic triad [active] 93059002620 dimer interface [polypeptide binding]; other site 93059002621 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 93059002622 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 93059002623 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 93059002624 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 93059002625 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 93059002626 hinge; other site 93059002627 active site 93059002628 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059002629 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 93059002630 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 93059002631 Substrate binding site; other site 93059002632 Mg++ binding site; other site 93059002633 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 93059002634 active site 93059002635 substrate binding site [chemical binding]; other site 93059002636 CoA binding site [chemical binding]; other site 93059002637 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 93059002638 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 93059002639 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 93059002640 glycogen synthase; Provisional; Region: glgA; PRK00654 93059002641 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 93059002642 ADP-binding pocket [chemical binding]; other site 93059002643 homodimer interface [polypeptide binding]; other site 93059002644 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 93059002645 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 93059002646 substrate binding site [chemical binding]; other site 93059002647 oxyanion hole (OAH) forming residues; other site 93059002648 trimer interface [polypeptide binding]; other site 93059002649 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 93059002650 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 93059002651 dimer interface [polypeptide binding]; other site 93059002652 tetramer interface [polypeptide binding]; other site 93059002653 PYR/PP interface [polypeptide binding]; other site 93059002654 TPP binding site [chemical binding]; other site 93059002655 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 93059002656 TPP-binding site; other site 93059002657 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 93059002658 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 93059002659 Catalytic site [active] 93059002660 Protein of unknown function (DUF760); Region: DUF760; pfam05542 93059002661 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 93059002662 ABC-ATPase subunit interface; other site 93059002663 dimer interface [polypeptide binding]; other site 93059002664 putative PBP binding regions; other site 93059002665 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 93059002666 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 93059002667 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 93059002668 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 93059002669 metal binding site [ion binding]; metal-binding site 93059002670 Domain of unknown function (DUF697); Region: DUF697; cl12064 93059002671 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 93059002672 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 93059002673 active site 93059002674 HIGH motif; other site 93059002675 dimer interface [polypeptide binding]; other site 93059002676 KMSKS motif; other site 93059002677 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 93059002678 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 93059002679 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 93059002680 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 93059002681 active site 93059002682 dimer interface [polypeptide binding]; other site 93059002683 motif 1; other site 93059002684 motif 2; other site 93059002685 motif 3; other site 93059002686 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 93059002687 anticodon binding site; other site 93059002688 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 93059002689 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 93059002690 homoserine kinase; Provisional; Region: PRK01212 93059002691 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 93059002692 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 93059002693 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 93059002694 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 93059002695 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 93059002696 active site 93059002697 Zn binding site [ion binding]; other site 93059002698 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 93059002699 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 93059002700 active site 93059002701 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 93059002702 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 93059002703 putative catalytic cysteine [active] 93059002704 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 93059002705 Predicted membrane protein [Function unknown]; Region: COG3164 93059002706 Family of unknown function (DUF490); Region: DUF490; pfam04357 93059002707 Protein of function (DUF2518); Region: DUF2518; pfam10726 93059002708 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 93059002709 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 93059002710 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 93059002711 glycogen branching enzyme; Provisional; Region: PRK05402 93059002712 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 93059002713 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 93059002714 active site 93059002715 catalytic site [active] 93059002716 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 93059002717 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 93059002718 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 93059002719 substrate binding site [chemical binding]; other site 93059002720 active site 93059002721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002722 NAD(P) binding site [chemical binding]; other site 93059002723 active site 93059002724 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 93059002725 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 93059002726 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 93059002727 Clp amino terminal domain; Region: Clp_N; pfam02861 93059002728 Clp amino terminal domain; Region: Clp_N; pfam02861 93059002729 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 93059002730 Walker A motif; other site 93059002731 ATP binding site [chemical binding]; other site 93059002732 Walker B motif; other site 93059002733 arginine finger; other site 93059002734 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 93059002735 Walker A motif; other site 93059002736 ATP binding site [chemical binding]; other site 93059002737 Walker B motif; other site 93059002738 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 93059002739 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 93059002740 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 93059002741 active site 93059002742 phosphorylation site [posttranslational modification] 93059002743 intermolecular recognition site; other site 93059002744 dimerization interface [polypeptide binding]; other site 93059002745 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 93059002746 DNA binding site [nucleotide binding] 93059002747 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 93059002748 putative GSH binding site [chemical binding]; other site 93059002749 catalytic residues [active] 93059002750 BolA-like protein; Region: BolA; cl00386 93059002751 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 93059002752 putative acyl-acceptor binding pocket; other site 93059002753 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 93059002754 active site 93059002755 hydrophilic channel; other site 93059002756 dimerization interface [polypeptide binding]; other site 93059002757 catalytic residues [active] 93059002758 active site lid [active] 93059002759 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 93059002760 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 93059002761 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 93059002762 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 93059002763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002765 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 93059002766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002767 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 93059002768 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 93059002769 ATP binding site [chemical binding]; other site 93059002770 Mg++ binding site [ion binding]; other site 93059002771 motif III; other site 93059002772 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 93059002773 nucleotide binding region [chemical binding]; other site 93059002774 ATP-binding site [chemical binding]; other site 93059002775 DbpA RNA binding domain; Region: DbpA; pfam03880 93059002776 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 93059002777 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 93059002778 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002779 Walker A/P-loop; other site 93059002780 ATP binding site [chemical binding]; other site 93059002781 Q-loop/lid; other site 93059002782 ABC transporter signature motif; other site 93059002783 Walker B; other site 93059002784 D-loop; other site 93059002785 H-loop/switch region; other site 93059002786 PsbP; Region: PsbP; cl03356 93059002787 recombination protein RecR; Reviewed; Region: recR; PRK00076 93059002788 RecR protein; Region: RecR; pfam02132 93059002789 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 93059002790 putative active site [active] 93059002791 putative metal-binding site [ion binding]; other site 93059002792 tetramer interface [polypeptide binding]; other site 93059002793 lipoyl synthase; Provisional; Region: PRK12928 93059002794 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 93059002795 FeS/SAM binding site; other site 93059002796 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 93059002797 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 93059002798 active site residue [active] 93059002799 biotin synthase; Region: bioB; TIGR00433 93059002800 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 93059002801 FeS/SAM binding site; other site 93059002802 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 93059002803 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 93059002804 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 93059002805 catalytic residue [active] 93059002806 putative FPP diphosphate binding site; other site 93059002807 putative FPP binding hydrophobic cleft; other site 93059002808 dimer interface [polypeptide binding]; other site 93059002809 putative IPP diphosphate binding site; other site 93059002810 Uncharacterized conserved protein [Function unknown]; Region: COG1624 93059002811 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 93059002812 diaminopimelate decarboxylase; Region: lysA; TIGR01048 93059002813 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 93059002814 active site 93059002815 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 93059002816 substrate binding site [chemical binding]; other site 93059002817 catalytic residues [active] 93059002818 dimer interface [polypeptide binding]; other site 93059002819 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 93059002820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 93059002821 Coenzyme A binding pocket [chemical binding]; other site 93059002822 Clp protease ATP binding subunit; Region: clpC; CHL00095 93059002823 Clp amino terminal domain; Region: Clp_N; pfam02861 93059002824 Clp amino terminal domain; Region: Clp_N; pfam02861 93059002825 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 93059002826 Walker A motif; other site 93059002827 ATP binding site [chemical binding]; other site 93059002828 Walker B motif; other site 93059002829 arginine finger; other site 93059002830 UvrB/uvrC motif; Region: UVR; pfam02151 93059002831 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 93059002832 Walker A motif; other site 93059002833 ATP binding site [chemical binding]; other site 93059002834 Walker B motif; other site 93059002835 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 93059002836 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 93059002837 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 93059002838 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 93059002839 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 93059002840 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059002841 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059002842 catalytic residue [active] 93059002843 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 93059002844 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; cl09940 93059002845 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 93059002846 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 93059002847 active site 93059002848 Helix-turn-helix domains; Region: HTH; cl00088 93059002849 Predicted transcription factor, homolog of eukaryotic MBF1 [Transcription]; Region: COG1813 93059002850 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 93059002851 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059002852 ribose-phosphate pyrophosphokinase; Region: PLN02369 93059002853 adaptive-response sensory kinase; Validated; Region: PRK09303 93059002854 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 93059002855 tetramer interface [polypeptide binding]; other site 93059002856 dimer interface [polypeptide binding]; other site 93059002857 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 93059002858 dimer interface [polypeptide binding]; other site 93059002859 phosphorylation site [posttranslational modification] 93059002860 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 93059002861 ATP binding site [chemical binding]; other site 93059002862 Mg2+ binding site [ion binding]; other site 93059002863 G-X-G motif; other site 93059002864 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 93059002865 hydrophobic ligand binding site; other site 93059002866 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 93059002867 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 93059002868 dimerization interface [polypeptide binding]; other site 93059002869 FAD binding pocket [chemical binding]; other site 93059002870 FAD binding motif [chemical binding]; other site 93059002871 catalytic residues [active] 93059002872 NAD binding pocket [chemical binding]; other site 93059002873 phosphate binding motif [ion binding]; other site 93059002874 beta-alpha-beta structure motif; other site 93059002875 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 93059002876 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 93059002877 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 93059002878 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 93059002879 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 93059002880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002881 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 93059002882 catalytic triad [active] 93059002883 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 93059002884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002885 Divergent PAP2 family; Region: DUF212; cl00855 93059002886 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 93059002887 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 93059002888 substrate binding pocket [chemical binding]; other site 93059002889 chain length determination region; other site 93059002890 substrate-Mg2+ binding site; other site 93059002891 catalytic residues [active] 93059002892 aspartate-rich region 1; other site 93059002893 active site lid residues [active] 93059002894 aspartate-rich region 2; other site 93059002895 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14186 93059002896 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 93059002897 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 93059002898 homodimer interface [polypeptide binding]; other site 93059002899 NADP binding site [chemical binding]; other site 93059002900 substrate binding site [chemical binding]; other site 93059002901 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 93059002902 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 93059002903 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 93059002904 Zn2+ binding site [ion binding]; other site 93059002905 Mg2+ binding site [ion binding]; other site 93059002906 Domain of unknown function DUF77; Region: DUF77; cl00307 93059002907 2-isopropylmalate synthase; Validated; Region: PRK00915 93059002908 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 93059002909 active site 93059002910 catalytic residues [active] 93059002911 metal binding site [ion binding]; metal-binding site 93059002912 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 93059002913 Uncharacterized conserved protein [Function unknown]; Region: COG1543 93059002914 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 93059002915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002916 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 93059002917 DNA gyrase subunit A; Validated; Region: PRK05560 93059002918 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 93059002919 CAP-like domain; other site 93059002920 active site 93059002921 primary dimer interface [polypeptide binding]; other site 93059002922 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059002923 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059002924 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059002925 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059002926 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059002927 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 93059002928 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 93059002929 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 93059002930 active site 93059002931 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 93059002932 catalytic residues [active] 93059002933 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 93059002934 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 93059002935 putative active site [active] 93059002936 oxyanion strand; other site 93059002937 catalytic triad [active] 93059002938 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 93059002939 S-adenosylmethionine binding site [chemical binding]; other site 93059002940 Cytochrome B6-F complex subunit 5; Region: PetG; cl03637 93059002941 Cytochrome c; Region: Cytochrom_C; cl11414 93059002942 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 93059002943 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 93059002944 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 93059002945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059002946 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 93059002947 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 93059002948 active site 93059002949 putative DNA-binding cleft [nucleotide binding]; other site 93059002950 dimer interface [polypeptide binding]; other site 93059002951 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 93059002952 Fe-S metabolism associated domain; Region: SufE; cl00951 93059002953 homoserine dehydrogenase; Provisional; Region: PRK06349 93059002954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002955 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 93059002956 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 93059002957 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 93059002958 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 93059002959 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 93059002960 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 93059002961 dimer interface [polypeptide binding]; other site 93059002962 conserved gate region; other site 93059002963 putative PBP binding loops; other site 93059002964 ABC-ATPase subunit interface; other site 93059002965 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 93059002966 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 93059002967 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 93059002968 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 93059002969 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 93059002970 substrate binding site [chemical binding]; other site 93059002971 ATP binding site [chemical binding]; other site 93059002972 Adenylate kinase, active site lid; Region: ADK_lid; pfam05191 93059002973 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059002974 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059002975 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 93059002976 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 93059002977 Photosystem II protein; Region: PSII; cl08223 93059002978 Photosystem II protein; Region: PSII; cl08223 93059002979 Photosystem II protein; Region: PSII; cl08223 93059002980 putative high light inducible protein; Region: PHA02337 93059002981 putative high light inducible protein; Region: PHA02337 93059002982 putative high light inducible protein; Region: PHA02337 93059002983 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 93059002984 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059002985 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 93059002986 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 93059002987 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 93059002988 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 93059002989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059002990 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 93059002991 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059002992 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 93059002993 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 93059002994 catalytic residues [active] 93059002995 dimer interface [polypeptide binding]; other site 93059002996 Protein of unknown function, DUF393; Region: DUF393; cl01136 93059002997 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 93059002998 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 93059002999 RNA/DNA binding site [nucleotide binding]; other site 93059003000 RRM dimerization site [polypeptide binding]; other site 93059003001 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 93059003002 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 93059003003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003004 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 93059003005 Membrane transport protein; Region: Mem_trans; cl09117 93059003006 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 93059003007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003008 Walker A/P-loop; other site 93059003009 ATP binding site [chemical binding]; other site 93059003010 Q-loop/lid; other site 93059003011 ABC transporter signature motif; other site 93059003012 Walker B; other site 93059003013 D-loop; other site 93059003014 H-loop/switch region; other site 93059003015 ABC transporter; Region: ABC_tran_2; pfam12848 93059003016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003017 Walker A/P-loop; other site 93059003018 ATP binding site [chemical binding]; other site 93059003019 Q-loop/lid; other site 93059003020 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 93059003021 ABC transporter signature motif; other site 93059003022 Walker B; other site 93059003023 D-loop; other site 93059003024 putative assembly protein; Provisional; Region: PRK10833 93059003025 Family of unknown function (DUF500); Region: DUF500; cl01109 93059003026 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 93059003027 PspC domain; Region: PspC; cl00864 93059003028 Photosystem II reaction centre N protein (psbN); Region: PsbN; cl03605 93059003029 GTP-binding protein YchF; Reviewed; Region: PRK09601 93059003030 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 93059003031 G1 box; other site 93059003032 GTP/Mg2+ binding site [chemical binding]; other site 93059003033 Switch I region; other site 93059003034 G2 box; other site 93059003035 Switch II region; other site 93059003036 G3 box; other site 93059003037 G4 box; other site 93059003038 G5 box; other site 93059003039 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 93059003040 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 93059003041 DNA polymerase I; Provisional; Region: PRK05755 93059003042 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 93059003043 active site 93059003044 metal binding site 1 [ion binding]; metal-binding site 93059003045 putative 5' ssDNA interaction site; other site 93059003046 metal binding site 3; metal-binding site 93059003047 metal binding site 2 [ion binding]; metal-binding site 93059003048 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 93059003049 putative DNA binding site [nucleotide binding]; other site 93059003050 putative metal binding site [ion binding]; other site 93059003051 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 93059003052 active site 93059003053 catalytic site [active] 93059003054 substrate binding site [chemical binding]; other site 93059003055 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 93059003056 active site 93059003057 DNA binding site [nucleotide binding] 93059003058 catalytic site [active] 93059003059 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 93059003060 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 93059003061 active site 93059003062 HIGH motif; other site 93059003063 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 93059003064 KMSKS motif; other site 93059003065 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 93059003066 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 93059003067 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 93059003068 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 93059003069 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 93059003070 dimer interface [polypeptide binding]; other site 93059003071 [2Fe-2S] cluster binding site [ion binding]; other site 93059003072 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 93059003073 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 93059003074 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 93059003075 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 93059003076 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 93059003077 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 93059003078 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 93059003079 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 93059003080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003081 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 93059003082 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 93059003083 rRNA binding site [nucleotide binding]; other site 93059003084 predicted 30S ribosome binding site; other site 93059003085 Ycf39; Provisional; Region: ycf39; CHL00194 93059003086 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 93059003087 NAD(P) binding site [chemical binding]; other site 93059003088 putative active site [active] 93059003089 PetM family of cytochrome b6f complex subunit 7; Region: PetM; cl15715 93059003090 hydrolase, alpha/beta fold family protein; Region: PLN02824 93059003091 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 93059003092 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 93059003093 acetohydroxyacid synthase small subunit; Region: ilvH; CHL00100 93059003094 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 93059003095 putative valine binding site [chemical binding]; other site 93059003096 dimer interface [polypeptide binding]; other site 93059003097 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 93059003098 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; cl00197 93059003099 active site 93059003100 Ycf4; Region: Ycf4; cl03567 93059003101 D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; Region: Photo_RC; cl08220 93059003102 pheophytin binding site; other site 93059003103 chlorophyll binding site; other site 93059003104 quinone binding site; other site 93059003105 Fe binding site [ion binding]; other site 93059003106 Photosystem II protein; Region: PSII; cl08223 93059003107 photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast; Region: psbC; TIGR01153 93059003108 Maf-like protein; Region: Maf; pfam02545 93059003109 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 93059003110 active site 93059003111 dimer interface [polypeptide binding]; other site 93059003112 cobyric acid synthase; Provisional; Region: PRK00784 93059003113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003114 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 93059003115 catalytic triad [active] 93059003116 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 93059003117 catalytic loop [active] 93059003118 succinate dehydrogenase and fumarate reductase iron-sulfur protein; Region: dhsB; TIGR00384 93059003119 iron binding site [ion binding]; other site 93059003120 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 93059003121 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 93059003122 Substrate binding site; other site 93059003123 metal-binding site 93059003124 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 93059003125 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 93059003126 NAD binding site [chemical binding]; other site 93059003127 substrate binding site [chemical binding]; other site 93059003128 active site 93059003129 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 93059003130 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 93059003131 inhibitor-cofactor binding pocket; inhibition site 93059003132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059003133 catalytic residue [active] 93059003134 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 93059003135 active site 93059003136 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 93059003137 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 93059003138 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 93059003139 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 93059003140 active site 93059003141 homodimer interface [polypeptide binding]; other site 93059003142 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 93059003143 NeuB family; Region: NeuB; cl00496 93059003144 SAF domain; Region: SAF; cl00555 93059003145 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 93059003146 active site 93059003147 cosubstrate binding site; other site 93059003148 substrate binding site [chemical binding]; other site 93059003149 catalytic site [active] 93059003150 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 93059003151 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 93059003152 binding surface 93059003153 TPR motif; other site 93059003154 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 93059003155 binding surface 93059003156 TPR motif; other site 93059003157 SGT1, suppressor of G2 allele of SKP1; Provisional; Region: PLN03088 93059003158 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 93059003159 binding surface 93059003160 TPR motif; other site 93059003161 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 93059003162 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 93059003163 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 93059003164 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 93059003165 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 93059003166 dimer interface [polypeptide binding]; other site 93059003167 motif 1; other site 93059003168 active site 93059003169 motif 2; other site 93059003170 motif 3; other site 93059003171 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 93059003172 Ligand binding site; other site 93059003173 Putative Catalytic site; other site 93059003174 DXD motif; other site 93059003175 GtrA-like protein; Region: GtrA; cl00971 93059003176 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 93059003177 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 93059003178 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 93059003179 putative ADP-binding pocket [chemical binding]; other site 93059003180 EamA-like transporter family; Region: EamA; cl01037 93059003181 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 93059003182 EamA-like transporter family; Region: EamA; cl01037 93059003183 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 93059003184 tandem repeat interface [polypeptide binding]; other site 93059003185 oligomer interface [polypeptide binding]; other site 93059003186 active site residues [active] 93059003187 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 93059003188 homotrimer interaction site [polypeptide binding]; other site 93059003189 active site 93059003190 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 93059003191 Ribonuclease P; Region: Ribonuclease_P; cl00457 93059003192 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 93059003193 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 93059003194 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 93059003195 Ycf46; Provisional; Region: ycf46; CHL00195 93059003196 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 93059003197 Walker A motif; other site 93059003198 ATP binding site [chemical binding]; other site 93059003199 Walker B motif; other site 93059003200 arginine finger; other site 93059003201 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 93059003202 seryl-tRNA synthetase; Provisional; Region: PRK05431 93059003203 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 93059003204 dimer interface [polypeptide binding]; other site 93059003205 active site 93059003206 motif 1; other site 93059003207 motif 2; other site 93059003208 motif 3; other site 93059003209 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 93059003210 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 93059003211 active site 93059003212 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 93059003213 protein binding site [polypeptide binding]; other site 93059003214 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 93059003215 putative substrate binding region [chemical binding]; other site 93059003216 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 93059003217 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 93059003218 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 93059003219 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 93059003220 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 93059003221 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 93059003222 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 93059003223 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 93059003224 putative nucleic acid binding region [nucleotide binding]; other site 93059003225 G-X-X-G motif; other site 93059003226 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 93059003227 RNA binding site [nucleotide binding]; other site 93059003228 domain interface; other site 93059003229 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 93059003230 active site 93059003231 Predicted methyltransferases [General function prediction only]; Region: COG0313 93059003232 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 93059003233 UDP-glucose 4-epimerase; Region: PLN02240 93059003234 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 93059003235 NAD binding site [chemical binding]; other site 93059003236 homodimer interface [polypeptide binding]; other site 93059003237 active site 93059003238 substrate binding site [chemical binding]; other site 93059003239 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 93059003240 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 93059003241 putative NAD(P) binding site [chemical binding]; other site 93059003242 active site 93059003243 putative substrate binding site [chemical binding]; other site 93059003244 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 93059003245 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 93059003246 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 93059003247 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 93059003248 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 93059003249 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 93059003250 active site 93059003251 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 93059003252 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 93059003253 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 93059003254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003255 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 93059003256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003257 NAD(P) binding site [chemical binding]; other site 93059003258 active site 93059003259 Cupin domain; Region: Cupin_2; cl09118 93059003260 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 93059003261 substrate binding site; other site 93059003262 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 93059003263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003264 NAD(P) binding site [chemical binding]; other site 93059003265 active site 93059003266 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 93059003267 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 93059003268 active site 93059003269 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 93059003270 Ligand binding site; other site 93059003271 oligomer interface; other site 93059003272 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 93059003273 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 93059003274 4Fe-4S binding domain; Region: Fer4; cl02805 93059003275 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 93059003276 4Fe-4S binding domain; Region: Fer4; cl02805 93059003277 Iron-Sulfur binding protein C terminal; Region: LdpA_C; pfam12617 93059003278 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 93059003279 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 93059003280 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 93059003281 motif II; other site 93059003282 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 93059003283 D-lactate dehydrogenase; Provisional; Region: PRK11183 93059003284 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 93059003285 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 93059003286 Helix-turn-helix domains; Region: HTH; cl00088 93059003287 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 93059003288 Catalytic site [active] 93059003289 ornithine carbamoyltransferase; Provisional; Region: PRK00779 93059003290 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 93059003291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003292 FtsH Extracellular; Region: FtsH_ext; pfam06480 93059003293 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 93059003294 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 93059003295 Walker A motif; other site 93059003296 ATP binding site [chemical binding]; other site 93059003297 Walker B motif; other site 93059003298 arginine finger; other site 93059003299 Peptidase family M41; Region: Peptidase_M41; pfam01434 93059003300 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 93059003301 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 93059003302 catalytic motif [active] 93059003303 Zn binding site [ion binding]; other site 93059003304 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 93059003305 Protein of unknown function (DUF3122); Region: DUF3122; pfam11320 93059003306 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 93059003307 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 93059003308 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059003309 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 93059003310 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 93059003311 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 93059003312 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 93059003313 dimer interface [polypeptide binding]; other site 93059003314 motif 1; other site 93059003315 active site 93059003316 motif 2; other site 93059003317 motif 3; other site 93059003318 Survival protein SurE; Region: SurE; cl00448 93059003319 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 93059003320 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 93059003321 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 93059003322 active site 93059003323 Riboflavin kinase; Region: Flavokinase; cl03312 93059003324 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 93059003325 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 93059003326 thiamine phosphate binding site [chemical binding]; other site 93059003327 active site 93059003328 pyrophosphate binding site [ion binding]; other site 93059003329 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 93059003330 thiS-thiF/thiG interaction site; other site 93059003331 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 93059003332 AIR carboxylase; Region: AIRC; cl00310 93059003333 uncharacterized cyanobacterial protein, TIGR03792 family; Region: TIGR03792 93059003334 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 93059003335 homotrimer interaction site [polypeptide binding]; other site 93059003336 zinc binding site [ion binding]; other site 93059003337 CDP-binding sites; other site 93059003338 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 93059003339 GTPase Era; Reviewed; Region: era; PRK00089 93059003340 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 93059003341 G1 box; other site 93059003342 GTP/Mg2+ binding site [chemical binding]; other site 93059003343 Switch I region; other site 93059003344 G2 box; other site 93059003345 Switch II region; other site 93059003346 G3 box; other site 93059003347 G4 box; other site 93059003348 G5 box; other site 93059003349 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 93059003350 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 93059003351 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 93059003352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003353 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 93059003354 signal recognition particle protein; Provisional; Region: PRK10867 93059003355 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 93059003356 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 93059003357 P loop; other site 93059003358 GTP binding site [chemical binding]; other site 93059003359 Signal peptide binding domain; Region: SRP_SPB; pfam02978 93059003360 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 93059003361 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 93059003362 tetramer interface [polypeptide binding]; other site 93059003363 TPP-binding site [chemical binding]; other site 93059003364 heterodimer interface [polypeptide binding]; other site 93059003365 phosphorylation loop region [posttranslational modification] 93059003366 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 93059003367 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 93059003368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 93059003369 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 93059003370 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 93059003371 DNA binding residues [nucleotide binding] 93059003372 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 93059003373 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 93059003374 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 93059003375 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 93059003376 Ligand Binding Site [chemical binding]; other site 93059003377 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 93059003378 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 93059003379 putative active site [active] 93059003380 catalytic triad [active] 93059003381 putative dimer interface [polypeptide binding]; other site 93059003382 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 93059003383 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 93059003384 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 93059003385 Catalytic site [active] 93059003386 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 93059003387 active site 93059003388 ribulose/triose binding site [chemical binding]; other site 93059003389 phosphate binding site [ion binding]; other site 93059003390 substrate (anthranilate) binding pocket [chemical binding]; other site 93059003391 product (indole) binding pocket [chemical binding]; other site 93059003392 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 93059003393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003395 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 93059003396 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 93059003397 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 93059003398 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 93059003399 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 93059003400 hinge; other site 93059003401 active site 93059003402 acetylornithine aminotransferase; Provisional; Region: PRK02627 93059003403 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 93059003404 inhibitor-cofactor binding pocket; inhibition site 93059003405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059003406 catalytic residue [active] 93059003407 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 93059003408 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 93059003409 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 93059003410 FAD binding domain; Region: FAD_binding_4; pfam01565 93059003411 cytosine deaminase-like protein; Validated; Region: PRK07583 93059003412 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 93059003413 active site 93059003414 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14333 93059003415 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 93059003416 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 93059003417 FeS/SAM binding site; other site 93059003418 TRAM domain; Region: TRAM; cl01282 93059003419 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 93059003420 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 93059003421 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059003422 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 93059003423 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 93059003424 cell division protein FtsZ; Validated; Region: PRK09330 93059003425 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 93059003426 nucleotide binding site [chemical binding]; other site 93059003427 SulA interaction site; other site 93059003428 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 93059003429 oligomerization interface [polypeptide binding]; other site 93059003430 active site 93059003431 metal binding site [ion binding]; metal-binding site 93059003432 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 93059003433 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 93059003434 FeS/SAM binding site; other site 93059003435 HemN C-terminal region; Region: HemN_C; pfam06969 93059003436 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 93059003437 putative active site [active] 93059003438 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 93059003439 oligomer interface [polypeptide binding]; other site 93059003440 active site residues [active] 93059003441 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 93059003442 oligomer interface [polypeptide binding]; other site 93059003443 active site residues [active] 93059003444 ketol-acid reductoisomerase; Provisional; Region: PRK05479 93059003445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003446 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 93059003447 CobD/Cbib protein; Region: CobD_Cbib; cl00561 93059003448 Bacterial sugar transferase; Region: Bac_transf; cl00939 93059003449 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 93059003450 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 93059003451 putative ADP-binding pocket [chemical binding]; other site 93059003452 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 93059003453 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 93059003454 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 93059003455 active site 93059003456 HIGH motif; other site 93059003457 nucleotide binding site [chemical binding]; other site 93059003458 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 93059003459 active site 93059003460 KMSKS motif; other site 93059003461 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 93059003462 IHF dimer interface [polypeptide binding]; other site 93059003463 IHF - DNA interface [nucleotide binding]; other site 93059003464 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059003465 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 93059003466 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 93059003467 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 93059003468 active site 93059003469 catalytic site [active] 93059003470 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 93059003471 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 93059003472 Domain of unknown function DUF140; Region: DUF140; cl00510 93059003473 Protein of unknown function (DUF3119); Region: DUF3119; pfam11317 93059003474 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 93059003475 Domain of unknown function (DUF205); Region: DUF205; cl00410 93059003476 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 93059003477 active site 93059003478 dimer interface [polypeptide binding]; other site 93059003479 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 93059003480 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 93059003481 active site 93059003482 HIGH motif; other site 93059003483 dimer interface [polypeptide binding]; other site 93059003484 KMSKS motif; other site 93059003485 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; cl09940 93059003486 Domain of unknown function (DUF1825); Region: DUF1825; pfam08855 93059003487 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 93059003488 multifunctional aminopeptidase A; Provisional; Region: PRK00913 93059003489 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 93059003490 interface (dimer of trimers) [polypeptide binding]; other site 93059003491 Substrate-binding/catalytic site; other site 93059003492 Zn-binding sites [ion binding]; other site 93059003493 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 93059003494 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 93059003495 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 93059003496 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 93059003497 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 93059003498 active site 93059003499 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 93059003500 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 93059003501 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 93059003502 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 93059003503 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 93059003504 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 93059003505 Surface antigen; Region: Bac_surface_Ag; cl03097 93059003506 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 93059003507 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 93059003508 ATP binding site [chemical binding]; other site 93059003509 active site 93059003510 substrate binding site [chemical binding]; other site 93059003511 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 93059003512 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 93059003513 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 93059003514 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 93059003515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 93059003516 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 93059003517 dimerization interface [polypeptide binding]; other site 93059003518 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 93059003519 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 93059003520 dimer interface [polypeptide binding]; other site 93059003521 phosphorylation site [posttranslational modification] 93059003522 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 93059003523 ATP binding site [chemical binding]; other site 93059003524 Mg2+ binding site [ion binding]; other site 93059003525 G-X-G motif; other site 93059003526 circadian clock protein KaiC; Reviewed; Region: PRK09302 93059003527 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 93059003528 Walker A motif; other site 93059003529 ATP binding site [chemical binding]; other site 93059003530 Walker B motif; other site 93059003531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003532 Walker A motif; other site 93059003533 ATP binding site [chemical binding]; other site 93059003534 Walker B motif; other site 93059003535 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 93059003536 tetramer interface [polypeptide binding]; other site 93059003537 dimer interface [polypeptide binding]; other site 93059003538 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 93059003539 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 93059003540 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059003541 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 93059003542 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 93059003543 RNA binding site [nucleotide binding]; other site 93059003544 active site 93059003545 Stage II sporulation protein; Region: SpoIID; pfam08486 93059003546 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 93059003547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059003548 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059003549 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 93059003550 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 93059003551 catalytic loop [active] 93059003552 iron binding site [ion binding]; other site 93059003553 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 93059003554 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 93059003555 S-adenosylmethionine binding site [chemical binding]; other site 93059003556 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 93059003557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003558 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 93059003559 putative L-serine binding site [chemical binding]; other site 93059003560 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK13108 93059003561 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 93059003562 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 93059003563 RNA binding surface [nucleotide binding]; other site 93059003564 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 93059003565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003566 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 93059003567 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 93059003568 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 93059003569 PQ loop repeat; Region: PQ-loop; cl12056 93059003570 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059003571 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 93059003572 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 93059003573 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 93059003574 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 93059003575 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 93059003576 Photosystem II protein; Region: PSII; cl08223 93059003577 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 93059003578 magnesium chelatase, H subunit; Region: BchH; TIGR02025 93059003579 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 93059003580 Domain of unknown function (DUF1824); Region: DUF1824; pfam08854 93059003581 Ion channel; Region: Ion_trans_2; cl11596 93059003582 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 93059003583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059003584 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 93059003585 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 93059003586 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 93059003587 binding surface 93059003588 TPR motif; other site 93059003589 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 93059003590 binding surface 93059003591 TPR motif; other site 93059003592 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 93059003593 RF-1 domain; Region: RF-1; cl02875 93059003594 Protein of unknown function, DUF393; Region: DUF393; cl01136 93059003595 Helix-turn-helix domains; Region: HTH; cl00088 93059003596 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 93059003597 NADP binding site [chemical binding]; other site 93059003598 homodimer interface [polypeptide binding]; other site 93059003599 active site 93059003600 Photosystem II protein; Region: PSII; cl08223 93059003601 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 93059003602 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 93059003603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003604 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 93059003605 short chain dehydrogenase; Provisional; Region: PRK06197 93059003606 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 93059003607 putative NAD(P) binding site [chemical binding]; other site 93059003608 active site 93059003609 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 93059003610 GTP cyclohydrolase I; Provisional; Region: PLN03044 93059003611 active site 93059003612 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059003613 putative high light inducible protein; Region: PHA02337 93059003614 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 93059003615 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 93059003616 Walker A/P-loop; other site 93059003617 ATP binding site [chemical binding]; other site 93059003618 Q-loop/lid; other site 93059003619 ABC transporter signature motif; other site 93059003620 Walker B; other site 93059003621 D-loop; other site 93059003622 H-loop/switch region; other site 93059003623 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 93059003624 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 93059003625 dimer interface [polypeptide binding]; other site 93059003626 conserved gate region; other site 93059003627 putative PBP binding loops; other site 93059003628 ABC-ATPase subunit interface; other site 93059003629 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 93059003630 dimer interface [polypeptide binding]; other site 93059003631 conserved gate region; other site 93059003632 putative PBP binding loops; other site 93059003633 ABC-ATPase subunit interface; other site 93059003634 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 93059003635 membrane-bound complex binding site; other site 93059003636 hinge residues; other site 93059003637 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 93059003638 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 93059003639 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059003640 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059003641 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 93059003642 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_III; cd01996 93059003643 Ligand Binding Site [chemical binding]; other site 93059003644 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 93059003645 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 93059003646 substrate binding site [chemical binding]; other site 93059003647 glutamase interaction surface [polypeptide binding]; other site 93059003648 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 93059003649 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 93059003650 putative active site [active] 93059003651 oxyanion strand; other site 93059003652 catalytic triad [active] 93059003653 TIGR03032 family protein; Region: TIGR03032 93059003654 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 93059003655 Ligand Binding Site [chemical binding]; other site 93059003656 Protein of unknown function (DUF3764); Region: DUF3764; pfam12594 93059003657 Protein of unknown function (DUF3804); Region: DUF3804; pfam12707 93059003658 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 93059003659 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 93059003660 DNA binding residues [nucleotide binding] 93059003661 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 93059003662 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 93059003663 ATP binding site [chemical binding]; other site 93059003664 Mg2+ binding site [ion binding]; other site 93059003665 G-X-G motif; other site 93059003666 OsmC-like protein; Region: OsmC; cl00767 93059003667 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 93059003668 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 93059003669 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 93059003670 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 93059003671 catalytic triad [active] 93059003672 putative high light inducible protein; Region: PHA02337 93059003673 putative high light inducible protein; Region: PHA02337 93059003674 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 93059003675 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 93059003676 structural tetrad; other site 93059003677 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 93059003678 P-loop, Walker A motif; other site 93059003679 Base recognition motif; other site 93059003680 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 93059003681 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 93059003682 region that could not be sequenced 93059003683 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 93059003684 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 93059003685 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 93059003686 metal binding site 2 [ion binding]; metal-binding site 93059003687 putative DNA binding helix; other site 93059003688 metal binding site 1 [ion binding]; metal-binding site 93059003689 dimer interface [polypeptide binding]; other site 93059003690 structural Zn2+ binding site [ion binding]; other site 93059003691 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 93059003692 putative PBP binding regions; other site 93059003693 ABC-ATPase subunit interface; other site 93059003694 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 93059003695 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 93059003696 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 93059003697 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 93059003698 DNA binding site [nucleotide binding] 93059003699 Int/Topo IB signature motif; other site 93059003700 active site 93059003701 catalytic residues [active] 93059003702 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 93059003703 TPR motif; other site 93059003704 binding surface 93059003705 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 93059003706 binding surface 93059003707 TPR motif; other site 93059003708 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 93059003709 binding surface 93059003710 TPR motif; other site 93059003711 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 93059003712 Walker A motif; other site 93059003713 ATP binding site [chemical binding]; other site 93059003714 Walker B motif; other site 93059003715 DNA binding loops [nucleotide binding] 93059003716 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 93059003717 T5orf172 domain; Region: T5orf172; cl11176 93059003718 OsmC-like protein; Region: OsmC; cl00767 93059003719 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 93059003720 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 93059003721 protein binding site [polypeptide binding]; other site 93059003722 EVE domain; Region: EVE; cl00728 93059003723 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 93059003724 Domain of unknown function (DUF1818); Region: DUF1818; pfam08848 93059003725 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 93059003726 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 93059003727 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 93059003728 Sulfatase; Region: Sulfatase; cl10460 93059003729 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 93059003730 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 93059003731 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 93059003732 ring oligomerisation interface [polypeptide binding]; other site 93059003733 ATP/Mg binding site [chemical binding]; other site 93059003734 stacking interactions; other site 93059003735 hinge regions; other site 93059003736 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 93059003737 oligomerisation interface [polypeptide binding]; other site 93059003738 mobile loop; other site 93059003739 roof hairpin; other site 93059003740 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 93059003741 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 93059003742 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 93059003743 alpha subunit interaction interface [polypeptide binding]; other site 93059003744 Walker A motif; other site 93059003745 ATP binding site [chemical binding]; other site 93059003746 Walker B motif; other site 93059003747 inhibitor binding site; inhibition site 93059003748 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 93059003749 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 93059003750 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 93059003751 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 93059003752 Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); Region: PSRP-3_Ycf65; cl04793 93059003753 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 93059003754 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 93059003755 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 93059003756 proline aminopeptidase P II; Provisional; Region: PRK10879 93059003757 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 93059003758 active site 93059003759 Domain of unknown function DUF21; Region: DUF21; pfam01595 93059003760 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 93059003761 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 93059003762 G1 box; other site 93059003763 GTP/Mg2+ binding site [chemical binding]; other site 93059003764 Switch I region; other site 93059003765 G2 box; other site 93059003766 Switch II region; other site 93059003767 G3 box; other site 93059003768 G4 box; other site 93059003769 G5 box; other site 93059003770 Domain of unknown function (DUF697); Region: DUF697; cl12064 93059003771 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 93059003772 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 93059003773 active site 93059003774 (T/H)XGH motif; other site 93059003775 NAD synthetase; Provisional; Region: PRK13981 93059003776 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 93059003777 multimer interface [polypeptide binding]; other site 93059003778 active site 93059003779 catalytic triad [active] 93059003780 protein interface 1 [polypeptide binding]; other site 93059003781 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 93059003782 homodimer interface [polypeptide binding]; other site 93059003783 NAD binding pocket [chemical binding]; other site 93059003784 ATP binding pocket [chemical binding]; other site 93059003785 Mg binding site [ion binding]; other site 93059003786 active-site loop [active] 93059003787 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 93059003788 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 93059003789 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 93059003790 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 93059003791 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 93059003792 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 93059003793 beta subunit interaction interface [polypeptide binding]; other site 93059003794 Walker A motif; other site 93059003795 ATP binding site [chemical binding]; other site 93059003796 Walker B motif; other site 93059003797 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 93059003798 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 93059003799 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 93059003800 F0F1 ATP synthase subunit B; Validated; Region: PRK07352 93059003801 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 93059003802 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 93059003803 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 93059003804 ATP synthase subunit C; Region: ATP-synt_C; cl00466 93059003805 ATP synthase A chain; Region: ATP-synt_A; cl00413 93059003806 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 93059003807 LysE type translocator; Region: LysE; cl00565 93059003808 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 93059003809 ResB-like family; Region: ResB; pfam05140 93059003810 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 93059003811 Nitrogen regulatory protein P-II; Region: P-II; cl00412 93059003812 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 93059003813 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 93059003814 RNA binding surface [nucleotide binding]; other site 93059003815 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059003816 adenylosuccinate lyase; Provisional; Region: PRK07380 93059003817 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 93059003818 tetramer interface [polypeptide binding]; other site 93059003819 active site 93059003820 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 93059003821 fumarate hydratase; Reviewed; Region: fumC; PRK00485 93059003822 Class II fumarases; Region: Fumarase_classII; cd01362 93059003823 active site 93059003824 tetramer interface [polypeptide binding]; other site 93059003825 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 93059003826 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 93059003827 ATP binding site [chemical binding]; other site 93059003828 putative Mg++ binding site [ion binding]; other site 93059003829 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 93059003830 nucleotide binding region [chemical binding]; other site 93059003831 ATP-binding site [chemical binding]; other site 93059003832 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 93059003833 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 93059003834 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059003835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 93059003836 catalytic residue [active] 93059003837 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 93059003838 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 93059003839 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059003840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059003841 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 93059003842 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 93059003843 inhibitor-cofactor binding pocket; inhibition site 93059003844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059003845 catalytic residue [active] 93059003846 Protein of unknown function (DUF3143); Region: DUF3143; pfam11341 93059003847 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 93059003848 HSP70 interaction site [polypeptide binding]; other site 93059003849 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 93059003850 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 93059003851 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 93059003852 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 93059003853 active site 93059003854 catalytic tetrad [active] 93059003855 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 93059003856 Protein of unknown function (DUF1257); Region: DUF1257; cl06088 93059003857 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 93059003858 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 93059003859 Sodium:solute symporter family; Region: SSF; cl00456 93059003860 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14457 93059003861 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 93059003862 FeS/SAM binding site; other site 93059003863 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 93059003864 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 93059003865 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 93059003866 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 93059003867 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 93059003868 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 93059003869 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 93059003870 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 93059003871 G-loop; other site 93059003872 DNA binding site [nucleotide binding] 93059003873 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 93059003874 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 93059003875 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 93059003876 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 93059003877 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 93059003878 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 93059003879 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 93059003880 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 93059003881 RPB1 interaction site [polypeptide binding]; other site 93059003882 RPB10 interaction site [polypeptide binding]; other site 93059003883 RPB11 interaction site [polypeptide binding]; other site 93059003884 RPB3 interaction site [polypeptide binding]; other site 93059003885 RPB12 interaction site [polypeptide binding]; other site 93059003886 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 93059003887 active site 93059003888 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 93059003889 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 93059003890 histidinol dehydrogenase; Region: hisD; TIGR00069 93059003891 NAD binding site [chemical binding]; other site 93059003892 dimerization interface [polypeptide binding]; other site 93059003893 product binding site; other site 93059003894 substrate binding site [chemical binding]; other site 93059003895 zinc binding site [ion binding]; other site 93059003896 catalytic residues [active] 93059003897 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 93059003898 tetramer (dimer of dimers) interface [polypeptide binding]; other site 93059003899 active site 93059003900 dimer interface [polypeptide binding]; other site 93059003901 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 93059003902 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 93059003903 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 93059003904 protein binding site [polypeptide binding]; other site 93059003905 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 93059003906 ribosome maturation protein RimP; Reviewed; Region: PRK00092 93059003907 NusA N-terminal domain; Region: NusA_N; pfam08529 93059003908 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 93059003909 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 93059003910 RNA binding site [nucleotide binding]; other site 93059003911 homodimer interface [polypeptide binding]; other site 93059003912 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 93059003913 G-X-X-G motif; other site 93059003914 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 93059003915 G-X-X-G motif; other site 93059003916 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 93059003917 translation initiation factor IF-2; Validated; Region: infB; PRK05306 93059003918 translation initiation factor IF-2; Validated; Region: infB; PRK05306 93059003919 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 93059003920 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 93059003921 G1 box; other site 93059003922 putative GEF interaction site [polypeptide binding]; other site 93059003923 GTP/Mg2+ binding site [chemical binding]; other site 93059003924 Switch I region; other site 93059003925 G2 box; other site 93059003926 G3 box; other site 93059003927 Switch II region; other site 93059003928 G4 box; other site 93059003929 G5 box; other site 93059003930 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 93059003931 Translation-initiation factor 2; Region: IF-2; pfam11987 93059003932 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 93059003933 Protein of unknown function (DUF3493); Region: DUF3493; pfam11998 93059003934 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 93059003935 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 93059003936 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 93059003937 FeS/SAM binding site; other site 93059003938 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 93059003939 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 93059003940 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 93059003941 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 93059003942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059003943 homodimer interface [polypeptide binding]; other site 93059003944 catalytic residue [active] 93059003945 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 93059003946 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 93059003947 FeS/SAM binding site; other site 93059003948 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 93059003949 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 93059003950 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 93059003951 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 93059003952 homodimer interface [polypeptide binding]; other site 93059003953 oligonucleotide binding site [chemical binding]; other site 93059003954 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 93059003955 RNA/DNA hybrid binding site [nucleotide binding]; other site 93059003956 active site 93059003957 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 93059003958 prephenate dehydratase; Provisional; Region: PRK11898 93059003959 Prephenate dehydratase; Region: PDT; pfam00800 93059003960 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 93059003961 putative L-Phe binding site [chemical binding]; other site 93059003962 tocopherol O-methyltransferase; Region: PLN02244 93059003963 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 93059003964 S-adenosylmethionine binding site [chemical binding]; other site 93059003965 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 93059003966 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 93059003967 elongation factor Tu; Reviewed; Region: PRK00049 93059003968 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 93059003969 G1 box; other site 93059003970 GEF interaction site [polypeptide binding]; other site 93059003971 GTP/Mg2+ binding site [chemical binding]; other site 93059003972 Switch I region; other site 93059003973 G2 box; other site 93059003974 G3 box; other site 93059003975 Switch II region; other site 93059003976 G4 box; other site 93059003977 G5 box; other site 93059003978 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 93059003979 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 93059003980 Antibiotic Binding Site [chemical binding]; other site 93059003981 elongation factor G; Reviewed; Region: PRK00007 93059003982 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 93059003983 G1 box; other site 93059003984 putative GEF interaction site [polypeptide binding]; other site 93059003985 GTP/Mg2+ binding site [chemical binding]; other site 93059003986 Switch I region; other site 93059003987 G2 box; other site 93059003988 G3 box; other site 93059003989 Switch II region; other site 93059003990 G4 box; other site 93059003991 G5 box; other site 93059003992 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 93059003993 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 93059003994 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 93059003995 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 93059003996 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 93059003997 S17 interaction site [polypeptide binding]; other site 93059003998 S8 interaction site; other site 93059003999 16S rRNA interaction site [nucleotide binding]; other site 93059004000 streptomycin interaction site [chemical binding]; other site 93059004001 23S rRNA interaction site [nucleotide binding]; other site 93059004002 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 93059004003 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 93059004004 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 93059004005 active site 93059004006 dimer interface [polypeptide binding]; other site 93059004007 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 93059004008 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 93059004009 active site 93059004010 FMN binding site [chemical binding]; other site 93059004011 substrate binding site [chemical binding]; other site 93059004012 3Fe-4S cluster binding site [ion binding]; other site 93059004013 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 93059004014 domain interface; other site 93059004015 YCII-related domain; Region: YCII; cl00999 93059004016 lipoyl synthase; Provisional; Region: PRK05481 93059004017 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 93059004018 FeS/SAM binding site; other site 93059004019 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 93059004020 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 93059004021 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 93059004022 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 93059004023 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 93059004024 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 93059004025 NlpC/P60 family; Region: NLPC_P60; cl11438 93059004026 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 93059004027 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 93059004028 Ligand binding site; other site 93059004029 Putative Catalytic site; other site 93059004030 DXD motif; other site 93059004031 Photosystem I reaction centre subunit VIII; Region: PSI_8; cl08205 93059004032 Photosystem I reaction centre subunit XI; Region: PsaL; cl03651 93059004033 alanine racemase; Reviewed; Region: alr; PRK00053 93059004034 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 93059004035 active site 93059004036 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 93059004037 dimer interface [polypeptide binding]; other site 93059004038 substrate binding site [chemical binding]; other site 93059004039 catalytic residues [active] 93059004040 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 93059004041 active site 93059004042 peptide chain release factor 1; Validated; Region: prfA; PRK00591 93059004043 RF-1 domain; Region: RF-1; cl02875 93059004044 RF-1 domain; Region: RF-1; cl02875 93059004045 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 93059004046 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 93059004047 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 93059004048 23S rRNA interface [nucleotide binding]; other site 93059004049 L3 interface [polypeptide binding]; other site 93059004050 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 93059004051 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 93059004052 dimerization interface 3.5A [polypeptide binding]; other site 93059004053 active site 93059004054 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 93059004055 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 93059004056 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 93059004057 alphaNTD homodimer interface [polypeptide binding]; other site 93059004058 alphaNTD - beta interaction site [polypeptide binding]; other site 93059004059 alphaNTD - beta' interaction site [polypeptide binding]; other site 93059004060 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 93059004061 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 93059004062 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 93059004063 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 93059004064 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 93059004065 adenylate kinase; Provisional; Region: PRK14531 93059004066 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 93059004067 AMP-binding site [chemical binding]; other site 93059004068 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 93059004069 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 93059004070 SecY translocase; Region: SecY; pfam00344 93059004071 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 93059004072 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 93059004073 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 93059004074 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 93059004075 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 93059004076 5S rRNA interface [nucleotide binding]; other site 93059004077 L27 interface [polypeptide binding]; other site 93059004078 23S rRNA interface [nucleotide binding]; other site 93059004079 L5 interface [polypeptide binding]; other site 93059004080 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 93059004081 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 93059004082 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 93059004083 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 93059004084 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 93059004085 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 93059004086 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 93059004087 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 93059004088 KOW motif; Region: KOW; cl00354 93059004089 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 93059004090 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 93059004091 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 93059004092 23S rRNA interface [nucleotide binding]; other site 93059004093 putative translocon interaction site; other site 93059004094 signal recognition particle (SRP54) interaction site; other site 93059004095 L23 interface [polypeptide binding]; other site 93059004096 trigger factor interaction site; other site 93059004097 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 93059004098 23S rRNA interface [nucleotide binding]; other site 93059004099 5S rRNA interface [nucleotide binding]; other site 93059004100 putative antibiotic binding site [chemical binding]; other site 93059004101 L25 interface [polypeptide binding]; other site 93059004102 L27 interface [polypeptide binding]; other site 93059004103 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 93059004104 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 93059004105 G-X-X-G motif; other site 93059004106 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 93059004107 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 93059004108 putative translocon binding site; other site 93059004109 protein-rRNA interface [nucleotide binding]; other site 93059004110 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 93059004111 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 93059004112 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 93059004113 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 93059004114 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 93059004115 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 93059004116 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 93059004117 NADH-quinone oxidoreductase cyanobacterial subunit N; Region: NdhN; pfam11909 93059004118 recombinase A; Provisional; Region: recA; PRK09354 93059004119 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 93059004120 hexamer interface [polypeptide binding]; other site 93059004121 Walker A motif; other site 93059004122 ATP binding site [chemical binding]; other site 93059004123 Walker B motif; other site 93059004124 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 93059004125 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 93059004126 arogenate dehydrogenase; Reviewed; Region: PRK07417 93059004127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004128 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 93059004129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004130 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 93059004131 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 93059004132 MPN+ (JAMM) motif; other site 93059004133 Zinc-binding site [ion binding]; other site 93059004134 hypothetical protein; Validated; Region: PRK07411 93059004135 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 93059004136 ATP binding site [chemical binding]; other site 93059004137 substrate interface [chemical binding]; other site 93059004138 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 93059004139 active site residue [active] 93059004140 hypothetical protein; Validated; Region: PRK07413 93059004141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004142 Walker A motif; other site 93059004143 ATP binding site [chemical binding]; other site 93059004144 Walker B motif; other site 93059004145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004146 Walker A motif; other site 93059004147 ATP binding site [chemical binding]; other site 93059004148 Walker B motif; other site 93059004149 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 93059004150 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 93059004151 Ligand Binding Site [chemical binding]; other site 93059004152 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 93059004153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004154 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 93059004155 Walker A/P-loop; other site 93059004156 ATP binding site [chemical binding]; other site 93059004157 Q-loop/lid; other site 93059004158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004159 ABC transporter signature motif; other site 93059004160 Walker B; other site 93059004161 D-loop; other site 93059004162 H-loop/switch region; other site 93059004163 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 93059004164 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 93059004165 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 93059004166 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 93059004167 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 93059004168 chorismate binding enzyme; Region: Chorismate_bind; cl10555 93059004169 PsaD; Region: PsaD; cl03639 93059004170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 93059004171 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 93059004172 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 93059004173 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 93059004174 Walker A motif; other site 93059004175 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 93059004176 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 93059004177 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 93059004178 putative active site [active] 93059004179 catalytic site [active] 93059004180 putative substrate binding site [chemical binding]; other site 93059004181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 93059004182 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 93059004183 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 93059004184 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 93059004185 dimerization interface [polypeptide binding]; other site 93059004186 putative ATP binding site [chemical binding]; other site 93059004187 bifunctional pantoate ligase/cytidylate kinase; Provisional; Region: PRK13477 93059004188 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 93059004189 active site 93059004190 nucleotide binding site [chemical binding]; other site 93059004191 HIGH motif; other site 93059004192 KMSKS motif; other site 93059004193 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 93059004194 CMP-binding site; other site 93059004195 The sites determining sugar specificity; other site 93059004196 Low molecular weight phosphatase family; Region: LMWPc; cd00115 93059004197 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 93059004198 active site 93059004199 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 93059004200 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 93059004201 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 93059004202 heme binding pocket [chemical binding]; other site 93059004203 heme ligand [chemical binding]; other site 93059004204 isocitrate dehydrogenase; Validated; Region: PRK07362 93059004205 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 93059004206 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 93059004207 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 93059004208 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 93059004209 phosphate binding site [ion binding]; other site 93059004210 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 93059004211 active site 93059004212 catalytic residues [active] 93059004213 hydrolase; Region: PLN02578 93059004214 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 93059004215 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 93059004216 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 93059004217 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 93059004218 homodimer interface [polypeptide binding]; other site 93059004219 active site pocket [active] 93059004220 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 93059004221 dimerization interface [polypeptide binding]; other site 93059004222 active site 93059004223 metal binding site [ion binding]; metal-binding site 93059004224 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 93059004225 dsRNA binding site [nucleotide binding]; other site 93059004226 Protein of unknown function (DUF3252); Region: DUF3252; pfam11623 93059004227 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 93059004228 RimM N-terminal domain; Region: RimM; pfam01782 93059004229 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 93059004230 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 93059004231 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 93059004232 Substrate binding site; other site 93059004233 Cupin domain; Region: Cupin_2; cl09118 93059004234 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 93059004235 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 93059004236 glutaminase active site [active] 93059004237 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 93059004238 dimer interface [polypeptide binding]; other site 93059004239 active site 93059004240 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 93059004241 dimer interface [polypeptide binding]; other site 93059004242 active site 93059004243 photosystem I subunit VII; Region: psaC; CHL00065 93059004244 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 93059004245 Phosphopantetheine attachment site; Region: PP-binding; cl09936 93059004246 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 93059004247 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 93059004248 dimer interface [polypeptide binding]; other site 93059004249 active site 93059004250 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 93059004251 transketolase; Region: PLN02790 93059004252 TPP-binding site [chemical binding]; other site 93059004253 dimer interface [polypeptide binding]; other site 93059004254 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 93059004255 PYR/PP interface [polypeptide binding]; other site 93059004256 dimer interface [polypeptide binding]; other site 93059004257 TPP binding site [chemical binding]; other site 93059004258 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 93059004259 ThiC family; Region: ThiC; cl08031 93059004260 Protein of unknown function (DUF3188); Region: DUF3188; pfam11384 93059004261 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 93059004262 amidohydrolase; Region: amidohydrolases; TIGR01891 93059004263 metal binding site [ion binding]; metal-binding site 93059004264 dimer interface [polypeptide binding]; other site 93059004265 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 93059004266 binding surface 93059004267 TPR motif; other site 93059004268 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 93059004269 binding surface 93059004270 TPR motif; other site 93059004271 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 93059004272 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 93059004273 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 93059004274 Walker A motif; other site 93059004275 ATP binding site [chemical binding]; other site 93059004276 Walker B motif; other site 93059004277 arginine finger; other site 93059004278 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 93059004279 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 93059004280 SmpB-tmRNA interface; other site 93059004281 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 93059004282 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 93059004283 dimer interface [polypeptide binding]; other site 93059004284 putative anticodon binding site; other site 93059004285 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 93059004286 motif 1; other site 93059004287 active site 93059004288 motif 2; other site 93059004289 motif 3; other site 93059004290 Ycf27; Reviewed; Region: orf27; CHL00148 93059004291 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 93059004292 active site 93059004293 phosphorylation site [posttranslational modification] 93059004294 intermolecular recognition site; other site 93059004295 dimerization interface [polypeptide binding]; other site 93059004296 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 93059004297 DNA binding site [nucleotide binding] 93059004298 rod shape-determining protein MreC; Provisional; Region: PRK13922 93059004299 rod shape-determining protein MreC; Region: MreC; pfam04085 93059004300 rod shape-determining protein MreB; Provisional; Region: PRK13927 93059004301 Cell division protein FtsA; Region: FtsA; cl11496 93059004302 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 93059004303 dimer interface [polypeptide binding]; other site 93059004304 ssDNA binding site [nucleotide binding]; other site 93059004305 tetramer (dimer of dimers) interface [polypeptide binding]; other site 93059004306 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 93059004307 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 93059004308 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 93059004309 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 93059004310 oligomerization interface [polypeptide binding]; other site 93059004311 active site 93059004312 NAD+ binding site [chemical binding]; other site 93059004313 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 93059004314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 93059004315 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 93059004316 putative substrate binding site [chemical binding]; other site 93059004317 putative ATP binding site [chemical binding]; other site 93059004318 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 93059004319 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 93059004320 minor groove reading motif; other site 93059004321 helix-hairpin-helix signature motif; other site 93059004322 substrate binding pocket [chemical binding]; other site 93059004323 active site 93059004324 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 93059004325 active site 93059004326 8-oxo-dGMP binding site [chemical binding]; other site 93059004327 nudix motif; other site 93059004328 metal binding site [ion binding]; metal-binding site 93059004329 hydrolase, alpha/beta fold family protein; Region: PLN02824 93059004330 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 93059004331 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 93059004332 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 93059004333 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 93059004334 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 93059004335 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl15358 93059004336 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 93059004337 MgtE intracellular N domain; Region: MgtE_N; cl15244 93059004338 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 93059004339 Divalent cation transporter; Region: MgtE; cl00786 93059004340 CrcB-like protein; Region: CRCB; cl09114 93059004341 CrcB-like protein; Region: CRCB; cl09114 93059004342 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 93059004343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 93059004344 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 93059004345 anchoring element; other site 93059004346 dimer interface [polypeptide binding]; other site 93059004347 ATP binding site [chemical binding]; other site 93059004348 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 93059004349 active site 93059004350 putative metal-binding site [ion binding]; other site 93059004351 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 93059004352 IPP transferase; Region: IPPT; cl00403 93059004353 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 93059004354 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 93059004355 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 93059004356 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 93059004357 Predicted transcriptional regulators [Transcription]; Region: COG1725 93059004358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 93059004359 DNA-binding site [nucleotide binding]; DNA binding site 93059004360 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 93059004361 serine O-acetyltransferase; Region: cysE; TIGR01172 93059004362 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 93059004363 trimer interface [polypeptide binding]; other site 93059004364 active site 93059004365 substrate binding site [chemical binding]; other site 93059004366 CoA binding site [chemical binding]; other site 93059004367 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12902 93059004368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004369 ATP binding site [chemical binding]; other site 93059004370 putative Mg++ binding site [ion binding]; other site 93059004371 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 93059004372 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 93059004373 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 93059004374 homopentamer interface [polypeptide binding]; other site 93059004375 active site 93059004376 YCF9; Region: Ycf9; cl09269 93059004377 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 93059004378 MutS domain I; Region: MutS_I; pfam01624 93059004379 MutS domain II; Region: MutS_II; pfam05188 93059004380 MutS family domain IV; Region: MutS_IV; pfam05190 93059004381 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 93059004382 Walker A/P-loop; other site 93059004383 ATP binding site [chemical binding]; other site 93059004384 Q-loop/lid; other site 93059004385 ABC transporter signature motif; other site 93059004386 Walker B; other site 93059004387 D-loop; other site 93059004388 H-loop/switch region; other site 93059004389 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 93059004390 DNA polymerase III subunit delta; Validated; Region: PRK07452 93059004391 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 93059004392 aspartate kinase; Provisional; Region: PRK07431 93059004393 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 93059004394 putative nucleotide binding site [chemical binding]; other site 93059004395 putative catalytic residues [active] 93059004396 putative Mg ion binding site [ion binding]; other site 93059004397 putative aspartate binding site [chemical binding]; other site 93059004398 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 93059004399 putative allosteric regulatory site; other site 93059004400 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 93059004401 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 93059004402 putative allosteric regulatory site; other site 93059004403 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 93059004404 putative allosteric regulatory residue; other site 93059004405 excinuclease ABC subunit B; Provisional; Region: PRK05298 93059004406 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 93059004407 ATP binding site [chemical binding]; other site 93059004408 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 93059004409 nucleotide binding region [chemical binding]; other site 93059004410 ATP-binding site [chemical binding]; other site 93059004411 Ultra-violet resistance protein B; Region: UvrB; pfam12344 93059004412 UvrB/uvrC motif; Region: UVR; pfam02151 93059004413 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 93059004414 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 93059004415 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 93059004416 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 93059004417 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 93059004418 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 93059004419 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 93059004420 dihydrodipicolinate synthase; Region: dapA; TIGR00674 93059004421 dimer interface [polypeptide binding]; other site 93059004422 active site 93059004423 catalytic residue [active] 93059004424 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 93059004425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004426 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 93059004427 trigger factor; Provisional; Region: tig; PRK01490 93059004428 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 93059004429 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 93059004430 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 93059004431 oligomer interface [polypeptide binding]; other site 93059004432 active site residues [active] 93059004433 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 93059004434 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 93059004435 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004436 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 93059004437 Walker A motif; other site 93059004438 ATP binding site [chemical binding]; other site 93059004439 Walker B motif; other site 93059004440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 93059004441 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 93059004442 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 93059004443 Walker A motif; other site 93059004444 ATP binding site [chemical binding]; other site 93059004445 Walker B motif; other site 93059004446 arginine finger; other site 93059004447 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 93059004448 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 93059004449 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 93059004450 DXD motif; other site 93059004451 Stage II sporulation protein; Region: SpoIID; pfam08486 93059004452 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 93059004453 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 93059004454 ribosomal protein L20; Region: rpl20; CHL00068 93059004455 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 93059004456 23S rRNA binding site [nucleotide binding]; other site 93059004457 L21 binding site [polypeptide binding]; other site 93059004458 L13 binding site [polypeptide binding]; other site 93059004459 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 93059004460 binding surface 93059004461 TPR motif; other site 93059004462 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 93059004463 ThiS interaction site; other site 93059004464 putative active site [active] 93059004465 tetramer interface [polypeptide binding]; other site 93059004466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004467 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 93059004468 NAD(P) binding site [chemical binding]; other site 93059004469 active site 93059004470 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 93059004471 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 93059004472 glycine dehydrogenase; Provisional; Region: PRK05367 93059004473 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 93059004474 tetramer interface [polypeptide binding]; other site 93059004475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059004476 catalytic residue [active] 93059004477 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 93059004478 tetramer interface [polypeptide binding]; other site 93059004479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059004480 catalytic residue [active] 93059004481 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 93059004482 lipoyl attachment site [posttranslational modification]; other site 93059004483 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 93059004484 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 93059004485 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 93059004486 Di-iron ligands [ion binding]; other site 93059004487 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 93059004488 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 93059004489 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 93059004490 replicative DNA helicase; Region: DnaB; TIGR00665 93059004491 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 93059004492 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 93059004493 Walker A motif; other site 93059004494 ATP binding site [chemical binding]; other site 93059004495 Walker B motif; other site 93059004496 DNA binding loops [nucleotide binding] 93059004497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004498 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 93059004499 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 93059004500 UTRA domain; Region: UTRA; cl01230 93059004501 SprT-like family; Region: SprT-like; pfam10263 93059004502 SprT homologues; Region: SprT; cl01182 93059004503 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 93059004504 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 93059004505 nucleotide binding pocket [chemical binding]; other site 93059004506 K-X-D-G motif; other site 93059004507 catalytic site [active] 93059004508 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 93059004509 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 93059004510 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 93059004511 Dimer interface [polypeptide binding]; other site 93059004512 BRCT sequence motif; other site 93059004513 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 93059004514 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 93059004515 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 93059004516 active site 93059004517 HIGH motif; other site 93059004518 nucleotide binding site [chemical binding]; other site 93059004519 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 93059004520 active site 93059004521 KMSKS motif; other site 93059004522 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 93059004523 tRNA binding surface [nucleotide binding]; other site 93059004524 anticodon binding site; other site 93059004525 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 93059004526 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 93059004527 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 93059004528 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 93059004529 spermidine synthase; Provisional; Region: PRK00811 93059004530 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 93059004531 S-adenosylmethionine binding site [chemical binding]; other site 93059004532 Arginase family; Region: Arginase; cl00306 93059004533 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 93059004534 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 93059004535 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 93059004536 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 93059004537 dimer interface [polypeptide binding]; other site 93059004538 anticodon binding site; other site 93059004539 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 93059004540 homodimer interface [polypeptide binding]; other site 93059004541 motif 1; other site 93059004542 active site 93059004543 motif 2; other site 93059004544 GAD domain; Region: GAD; pfam02938 93059004545 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 93059004546 active site 93059004547 motif 3; other site 93059004548 CTP synthetase; Validated; Region: pyrG; PRK05380 93059004549 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 93059004550 Catalytic site [active] 93059004551 active site 93059004552 UTP binding site [chemical binding]; other site 93059004553 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 93059004554 active site 93059004555 putative oxyanion hole; other site 93059004556 catalytic triad [active] 93059004557 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 93059004558 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 93059004559 Ligand Binding Site [chemical binding]; other site 93059004560 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 93059004561 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 93059004562 chorismate binding enzyme; Region: Chorismate_bind; cl10555 93059004563 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 93059004564 homodimer interface [polypeptide binding]; other site 93059004565 substrate-cofactor binding pocket; other site 93059004566 Aminotransferase class IV; Region: Aminotran_4; pfam01063 93059004567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059004568 catalytic residue [active] 93059004569 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 93059004570 diphthine synthase; Region: dph5; TIGR00522 93059004571 hypothetical protein; Provisional; Region: PRK07394 93059004572 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 93059004573 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 93059004574 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; cl11420 93059004575 polyphosphate kinase; Provisional; Region: PRK05443 93059004576 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 93059004577 putative domain interface [polypeptide binding]; other site 93059004578 putative active site [active] 93059004579 catalytic site [active] 93059004580 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 93059004581 putative domain interface [polypeptide binding]; other site 93059004582 putative active site [active] 93059004583 catalytic site [active] 93059004584 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 93059004585 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 93059004586 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 93059004587 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 93059004588 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 93059004589 DNA binding residues [nucleotide binding] 93059004590 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 93059004591 NeuB family; Region: NeuB; cl00496 93059004592 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 93059004593 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 93059004594 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 93059004595 substrate binding site [chemical binding]; other site 93059004596 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 93059004597 substrate binding site [chemical binding]; other site 93059004598 ligand binding site [chemical binding]; other site 93059004599 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 93059004600 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 93059004601 Cl- selectivity filter; other site 93059004602 Cl- binding residues [ion binding]; other site 93059004603 pore gating glutamate residue; other site 93059004604 dimer interface [polypeptide binding]; other site 93059004605 H+/Cl- coupling transport residue; other site 93059004606 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 93059004607 B12 binding site [chemical binding]; other site 93059004608 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 93059004609 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 93059004610 FeS/SAM binding site; other site 93059004611 O-Antigen ligase; Region: Wzy_C; cl04850 93059004612 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 93059004613 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 93059004614 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 93059004615 putative active site [active] 93059004616 putative substrate binding site [chemical binding]; other site 93059004617 putative cosubstrate binding site; other site 93059004618 catalytic site [active] 93059004619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004620 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 93059004621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 93059004622 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 93059004623 StbA protein; Region: StbA; pfam06406 93059004624 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 93059004625 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 93059004626 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 93059004627 shikimate binding site; other site 93059004628 NAD(P) binding site [chemical binding]; other site 93059004629 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 93059004630 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 93059004631 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 93059004632 ANP binding site [chemical binding]; other site 93059004633 Substrate Binding Site II [chemical binding]; other site 93059004634 Substrate Binding Site I [chemical binding]; other site 93059004635 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 93059004636 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 93059004637 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 93059004638 Mg++ binding site [ion binding]; other site 93059004639 putative catalytic motif [active] 93059004640 putative substrate binding site [chemical binding]; other site 93059004641 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 93059004642 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 93059004643 putative ADP-binding pocket [chemical binding]; other site 93059004644 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 93059004645 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 93059004646 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 93059004647 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 93059004648 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 93059004649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 93059004650 Walker A/P-loop; other site 93059004651 ATP binding site [chemical binding]; other site 93059004652 Q-loop/lid; other site 93059004653 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 93059004654 ABC transporter signature motif; other site 93059004655 Walker B; other site 93059004656 D-loop; other site 93059004657 H-loop/switch region; other site 93059004658 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 93059004659 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 93059004660 active site 93059004661 substrate binding site [chemical binding]; other site 93059004662 ATP binding site [chemical binding]; other site 93059004663 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 93059004664 threonine synthase; Reviewed; Region: PRK06721 93059004665 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 93059004666 homodimer interface [polypeptide binding]; other site 93059004667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 93059004668 catalytic residue [active]