-- dump date 20140619_040748 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1112250000001 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 1112250000002 dimer interface [polypeptide binding]; other site 1112250000003 active site 1112250000004 aspartate-rich active site metal binding site; other site 1112250000005 allosteric magnesium binding site [ion binding]; other site 1112250000006 Schiff base residues; other site 1112250000007 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrA [Energy production and conversion]; Region: NqrA; COG1726 1112250000008 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1112250000009 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1112250000010 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 1112250000011 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1112250000012 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1112250000013 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1112250000014 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 1112250000015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112250000016 homodimer interface [polypeptide binding]; other site 1112250000017 catalytic residue [active] 1112250000018 rod shape-determining protein MreC; Provisional; Region: PRK14872 1112250000019 rod shape-determining protein MreC; Region: MreC; pfam04085 1112250000020 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 1112250000021 Part of AAA domain; Region: AAA_19; pfam13245 1112250000022 Family description; Region: UvrD_C_2; pfam13538 1112250000023 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 1112250000024 H+ Antiporter protein; Region: 2A0121; TIGR00900 1112250000025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1112250000026 putative substrate translocation pore; other site 1112250000027 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1112250000028 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1112250000029 active site residue [active] 1112250000030 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1112250000031 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 1112250000032 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 1112250000033 RNA binding surface [nucleotide binding]; other site 1112250000034 endonuclease IV; Provisional; Region: PRK01060 1112250000035 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1112250000036 AP (apurinic/apyrimidinic) site pocket; other site 1112250000037 DNA interaction; other site 1112250000038 Metal-binding active site; metal-binding site 1112250000039 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1112250000040 MviN-like protein; Region: MVIN; pfam03023 1112250000041 Effector from type III secretion system; Region: Effector_1; pfam04518 1112250000042 Effector from type III secretion system; Region: Effector_1; pfam04518 1112250000043 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1112250000044 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1112250000045 Walker A/P-loop; other site 1112250000046 ATP binding site [chemical binding]; other site 1112250000047 Q-loop/lid; other site 1112250000048 ABC transporter signature motif; other site 1112250000049 Walker B; other site 1112250000050 D-loop; other site 1112250000051 H-loop/switch region; other site 1112250000052 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 1112250000053 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1112250000054 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1112250000055 hypothetical protein; Provisional; Region: PRK01064 1112250000056 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1112250000057 G-X-X-G motif; other site 1112250000058 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1112250000059 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 1112250000060 RNA binding surface [nucleotide binding]; other site 1112250000061 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1112250000062 active site 1112250000063 DNA topoisomerase IV subunit A; Provisional; Region: PRK09630 1112250000064 CAP-like domain; other site 1112250000065 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 1112250000066 active site 1112250000067 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1112250000068 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1112250000069 ATP binding site [chemical binding]; other site 1112250000070 Mg2+ binding site [ion binding]; other site 1112250000071 G-X-G motif; other site 1112250000072 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 1112250000073 ATP binding site [chemical binding]; other site 1112250000074 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 1112250000075 active site 1112250000076 putative metal-binding site [ion binding]; other site 1112250000077 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1112250000078 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 1112250000079 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1112250000080 NAD(P) binding pocket [chemical binding]; other site 1112250000081 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1112250000082 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1112250000083 phosphopeptide binding site; other site 1112250000084 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1112250000085 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1112250000086 phosphopeptide binding site; other site 1112250000087 type III secretion system ATPase; Provisional; Region: PRK06315 1112250000088 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1112250000089 Walker A motif/ATP binding site; other site 1112250000090 Walker B motif; other site 1112250000091 type III secretion system protein; Validated; Region: PRK05933 1112250000092 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1112250000093 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1112250000094 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1112250000095 active site 1112250000096 ATP binding site [chemical binding]; other site 1112250000097 substrate binding site [chemical binding]; other site 1112250000098 activation loop (A-loop); other site 1112250000099 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1112250000100 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1112250000101 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1112250000102 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1112250000103 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1112250000104 ATP:guanido phosphotransferase, C-terminal catalytic domain; Region: ATP-gua_Ptrans; pfam00217 1112250000105 ADP binding site [chemical binding]; other site 1112250000106 phosphagen binding site; other site 1112250000107 substrate specificity loop; other site 1112250000108 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1112250000109 UvrB/uvrC motif; Region: UVR; pfam02151 1112250000110 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1112250000111 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1112250000112 hinge region; other site 1112250000113 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 1112250000114 putative nucleotide binding site [chemical binding]; other site 1112250000115 uridine monophosphate binding site [chemical binding]; other site 1112250000116 homohexameric interface [polypeptide binding]; other site 1112250000117 elongation factor Ts; Provisional; Region: tsf; PRK09377 1112250000118 UBA/TS-N domain; Region: UBA; pfam00627 1112250000119 Elongation factor TS; Region: EF_TS; pfam00889 1112250000120 Elongation factor TS; Region: EF_TS; pfam00889 1112250000121 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 1112250000122 rRNA interaction site [nucleotide binding]; other site 1112250000123 S8 interaction site; other site 1112250000124 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 1112250000125 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1112250000126 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1112250000127 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1112250000128 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1112250000129 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 1112250000130 binding surface 1112250000131 TPR motif; other site 1112250000132 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 1112250000133 binding surface 1112250000134 TPR motif; other site 1112250000135 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1112250000136 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1112250000137 putative ABC transporter; Region: ycf24; CHL00085 1112250000138 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1112250000139 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1112250000140 Walker A/P-loop; other site 1112250000141 ATP binding site [chemical binding]; other site 1112250000142 Q-loop/lid; other site 1112250000143 ABC transporter signature motif; other site 1112250000144 Walker B; other site 1112250000145 D-loop; other site 1112250000146 H-loop/switch region; other site 1112250000147 FeS assembly protein SufD; Region: sufD; TIGR01981 1112250000148 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1112250000149 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1112250000150 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 1112250000151 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112250000152 catalytic residue [active] 1112250000153 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1112250000154 putative active site [active] 1112250000155 putative metal binding site [ion binding]; other site 1112250000156 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1112250000157 ParB-like nuclease domain; Region: ParBc; pfam02195 1112250000158 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112250000159 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112250000160 Walker A/P-loop; other site 1112250000161 ATP binding site [chemical binding]; other site 1112250000162 Q-loop/lid; other site 1112250000163 ABC transporter signature motif; other site 1112250000164 Walker B; other site 1112250000165 D-loop; other site 1112250000166 H-loop/switch region; other site 1112250000167 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112250000168 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112250000169 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112250000170 Walker A/P-loop; other site 1112250000171 ATP binding site [chemical binding]; other site 1112250000172 Q-loop/lid; other site 1112250000173 ABC transporter signature motif; other site 1112250000174 Walker B; other site 1112250000175 D-loop; other site 1112250000176 H-loop/switch region; other site 1112250000177 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112250000178 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1112250000179 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1112250000180 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1112250000181 Phosphoglycerate kinase; Region: PGK; pfam00162 1112250000182 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 1112250000183 substrate binding site [chemical binding]; other site 1112250000184 hinge regions; other site 1112250000185 ADP binding site [chemical binding]; other site 1112250000186 catalytic site [active] 1112250000187 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1112250000188 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 1112250000189 S-adenosylmethionine binding site [chemical binding]; other site 1112250000190 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1112250000191 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1112250000192 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1112250000193 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 1112250000194 ATP binding site [chemical binding]; other site 1112250000195 Mg2+ binding site [ion binding]; other site 1112250000196 G-X-G motif; other site 1112250000197 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1112250000198 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1112250000199 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1112250000200 active site 1112250000201 PHP Thumb interface [polypeptide binding]; other site 1112250000202 metal binding site [ion binding]; metal-binding site 1112250000203 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 1112250000204 generic binding surface I; other site 1112250000205 generic binding surface II; other site 1112250000206 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1112250000207 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1112250000208 putative substrate translocation pore; other site 1112250000209 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1112250000210 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1112250000211 dimer interface [polypeptide binding]; other site 1112250000212 motif 1; other site 1112250000213 active site 1112250000214 motif 2; other site 1112250000215 motif 3; other site 1112250000216 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 1112250000217 anticodon binding site; other site 1112250000218 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1112250000219 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 1112250000220 dimer interface [polypeptide binding]; other site 1112250000221 anticodon binding site; other site 1112250000222 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1112250000223 homodimer interface [polypeptide binding]; other site 1112250000224 motif 1; other site 1112250000225 active site 1112250000226 motif 2; other site 1112250000227 GAD domain; Region: GAD; pfam02938 1112250000228 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1112250000229 active site 1112250000230 motif 3; other site 1112250000231 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1112250000232 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1112250000233 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1112250000234 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1112250000235 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 1112250000236 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1112250000237 catalytic residues [active] 1112250000238 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 1112250000239 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 1112250000240 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; pfam02367 1112250000241 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 1112250000242 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1112250000243 active site 1112250000244 catalytic site [active] 1112250000245 substrate binding site [chemical binding]; other site 1112250000246 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 1112250000247 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1112250000248 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1112250000249 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1112250000250 putative active site [active] 1112250000251 catalytic triad [active] 1112250000252 putative dimer interface [polypeptide binding]; other site 1112250000253 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1112250000254 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1112250000255 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 1112250000256 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1112250000257 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 1112250000258 active site 1112250000259 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1112250000260 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1112250000261 putative active site [active] 1112250000262 substrate binding site [chemical binding]; other site 1112250000263 putative cosubstrate binding site; other site 1112250000264 catalytic site [active] 1112250000265 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1112250000266 substrate binding site [chemical binding]; other site 1112250000267 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1112250000268 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1112250000269 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1112250000270 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1112250000271 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1112250000272 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1112250000273 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1112250000274 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 1112250000275 putative translocon binding site; other site 1112250000276 protein-rRNA interface [nucleotide binding]; other site 1112250000277 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 1112250000278 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 1112250000279 G-X-X-G motif; other site 1112250000280 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1112250000281 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 1112250000282 23S rRNA interface [nucleotide binding]; other site 1112250000283 5S rRNA interface [nucleotide binding]; other site 1112250000284 putative antibiotic binding site [chemical binding]; other site 1112250000285 L25 interface [polypeptide binding]; other site 1112250000286 L27 interface [polypeptide binding]; other site 1112250000287 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 1112250000288 23S rRNA interface [nucleotide binding]; other site 1112250000289 putative translocon interaction site; other site 1112250000290 signal recognition particle (SRP54) interaction site; other site 1112250000291 L23 interface [polypeptide binding]; other site 1112250000292 trigger factor interaction site; other site 1112250000293 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1112250000294 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1112250000295 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 1112250000296 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1112250000297 RNA binding site [nucleotide binding]; other site 1112250000298 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1112250000299 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1112250000300 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1112250000301 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1112250000302 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1112250000303 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1112250000304 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1112250000305 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 1112250000306 5S rRNA interface [nucleotide binding]; other site 1112250000307 L27 interface [polypeptide binding]; other site 1112250000308 23S rRNA interface [nucleotide binding]; other site 1112250000309 L5 interface [polypeptide binding]; other site 1112250000310 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1112250000311 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1112250000312 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1112250000313 ribosomal protein L15, bacterial/organelle; Region: rplO_bact; TIGR01071 1112250000314 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1112250000315 SecY translocase; Region: SecY; pfam00344 1112250000316 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1112250000317 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1112250000318 30S ribosomal protein S11; Validated; Region: PRK05309 1112250000319 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1112250000320 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1112250000321 alphaNTD - beta interaction site [polypeptide binding]; other site 1112250000322 alphaNTD homodimer interface [polypeptide binding]; other site 1112250000323 alphaNTD - beta' interaction site [polypeptide binding]; other site 1112250000324 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1112250000325 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1112250000326 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1112250000327 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1112250000328 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1112250000329 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1112250000330 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1112250000331 active site 1112250000332 putative DNA-binding cleft [nucleotide binding]; other site 1112250000333 dimer interface [polypeptide binding]; other site 1112250000334 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1112250000335 RuvA N terminal domain; Region: RuvA_N; pfam01330 1112250000336 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1112250000337 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 1112250000338 active site 1112250000339 multimer interface [polypeptide binding]; other site 1112250000340 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1112250000341 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1112250000342 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1112250000343 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1112250000344 replicative DNA helicase; Provisional; Region: PRK06321 1112250000345 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1112250000346 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 1112250000347 Walker A motif; other site 1112250000348 ATP binding site [chemical binding]; other site 1112250000349 Walker B motif; other site 1112250000350 DNA binding loops [nucleotide binding] 1112250000351 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1112250000352 TLC ATP/ADP transporter; Region: TLC; pfam03219 1112250000353 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1112250000354 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1112250000355 tandem repeat interface [polypeptide binding]; other site 1112250000356 oligomer interface [polypeptide binding]; other site 1112250000357 active site residues [active] 1112250000358 DNA polymerase I; Provisional; Region: PRK05755 1112250000359 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1112250000360 active site 1112250000361 metal binding site 1 [ion binding]; metal-binding site 1112250000362 putative 5' ssDNA interaction site; other site 1112250000363 metal binding site 3; metal-binding site 1112250000364 metal binding site 2 [ion binding]; metal-binding site 1112250000365 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1112250000366 putative DNA binding site [nucleotide binding]; other site 1112250000367 putative metal binding site [ion binding]; other site 1112250000368 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1112250000369 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1112250000370 active site 1112250000371 DNA binding site [nucleotide binding] 1112250000372 catalytic site [active] 1112250000373 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1112250000374 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 1112250000375 CoA-binding site [chemical binding]; other site 1112250000376 ATP-binding [chemical binding]; other site 1112250000377 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1112250000378 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1112250000379 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1112250000380 RNA binding site [nucleotide binding]; other site 1112250000381 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1112250000382 multimer interface [polypeptide binding]; other site 1112250000383 Walker A motif; other site 1112250000384 ATP binding site [chemical binding]; other site 1112250000385 Walker B motif; other site 1112250000386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112250000387 active site 1112250000388 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 1112250000389 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1112250000390 ligand binding site; other site 1112250000391 oligomer interface; other site 1112250000392 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 1112250000393 dimer interface [polypeptide binding]; other site 1112250000394 N-terminal domain interface [polypeptide binding]; other site 1112250000395 sulfate 1 binding site; other site 1112250000396 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 1112250000397 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1112250000398 putative active site [active] 1112250000399 putative metal binding site [ion binding]; other site 1112250000400 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1112250000401 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 1112250000402 S-adenosylmethionine binding site [chemical binding]; other site 1112250000403 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1112250000404 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 1112250000405 substrate binding pocket [chemical binding]; other site 1112250000406 membrane-bound complex binding site; other site 1112250000407 hinge residues; other site 1112250000408 ferrochelatase; Reviewed; Region: hemH; PRK00035 1112250000409 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 1112250000410 C-terminal domain interface [polypeptide binding]; other site 1112250000411 active site 1112250000412 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 1112250000413 active site 1112250000414 N-terminal domain interface [polypeptide binding]; other site 1112250000415 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 1112250000416 TPR motif; other site 1112250000417 binding surface 1112250000418 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1112250000419 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1112250000420 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112250000421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1112250000422 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112250000423 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1112250000424 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112250000425 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 1112250000426 dimer interface [polypeptide binding]; other site 1112250000427 conserved gate region; other site 1112250000428 putative PBP binding loops; other site 1112250000429 ABC-ATPase subunit interface; other site 1112250000430 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1112250000431 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1112250000432 DNA binding site [nucleotide binding] 1112250000433 active site 1112250000434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1112250000435 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1112250000436 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 1112250000437 putative tRNA-binding site [nucleotide binding]; other site 1112250000438 B3/4 domain; Region: B3_4; pfam03483 1112250000439 tRNA synthetase B5 domain; Region: B5; smart00874 1112250000440 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 1112250000441 dimer interface [polypeptide binding]; other site 1112250000442 motif 1; other site 1112250000443 motif 3; other site 1112250000444 motif 2; other site 1112250000445 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1112250000446 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1112250000447 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1112250000448 Uncharacterized conserved protein [Function unknown]; Region: COG1723 1112250000449 Recombination protein O N terminal; Region: RecO_N; pfam11967 1112250000450 DNA repair protein RecO; Region: reco; TIGR00613 1112250000451 Recombination protein O C terminal; Region: RecO_C; pfam02565 1112250000452 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1112250000453 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 1112250000454 30S subunit binding site; other site 1112250000455 Response regulator receiver domain; Region: Response_reg; pfam00072 1112250000456 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 1112250000457 active site 1112250000458 phosphorylation site [posttranslational modification] 1112250000459 intermolecular recognition site; other site 1112250000460 dimerization interface [polypeptide binding]; other site 1112250000461 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 1112250000462 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1112250000463 Walker A motif; other site 1112250000464 ATP binding site [chemical binding]; other site 1112250000465 Walker B motif; other site 1112250000466 arginine finger; other site 1112250000467 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1112250000468 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1112250000469 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1112250000470 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 1112250000471 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 1112250000472 dimer interface [polypeptide binding]; other site 1112250000473 phosphorylation site [posttranslational modification] 1112250000474 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 1112250000475 ATP binding site [chemical binding]; other site 1112250000476 Mg2+ binding site [ion binding]; other site 1112250000477 G-X-G motif; other site 1112250000478 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1112250000479 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 1112250000480 motif II; other site 1112250000481 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1112250000482 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1112250000483 dimerization interface 3.5A [polypeptide binding]; other site 1112250000484 active site 1112250000485 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1112250000486 substrate binding site; other site 1112250000487 dimer interface; other site 1112250000488 phosphodiesterase YaeI; Provisional; Region: PRK11340 1112250000489 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1112250000490 putative active site [active] 1112250000491 putative metal binding site [ion binding]; other site 1112250000492 SWIB/MDM2 domain; Region: SWIB; pfam02201 1112250000493 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1112250000494 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1112250000495 RF-1 domain; Region: RF-1; pfam00472 1112250000496 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1112250000497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112250000498 Coenzyme A binding pocket [chemical binding]; other site 1112250000499 SprT-like family; Region: SprT-like; pfam10263 1112250000500 DNA-binding regulatory protein, YebC/PmpR family; Region: TIGR01033 1112250000501 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 1112250000502 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 1112250000503 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 1112250000504 I/LWEQ domain; Region: ILWEQ; smart00307 1112250000505 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1112250000506 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 1112250000507 hinge; other site 1112250000508 active site 1112250000509 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1112250000510 arginine-tRNA ligase; Region: PLN02286 1112250000511 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1112250000512 active site 1112250000513 HIGH motif; other site 1112250000514 KMSK motif region; other site 1112250000515 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1112250000516 tRNA binding surface [nucleotide binding]; other site 1112250000517 anticodon binding site; other site 1112250000518 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1112250000519 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1112250000520 putative acyl-acceptor binding pocket; other site 1112250000521 cytidylate kinase; Provisional; Region: cmk; PRK00023 1112250000522 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 1112250000523 CMP-binding site; other site 1112250000524 The sites determining sugar specificity; other site 1112250000525 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1112250000526 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1112250000527 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14840 1112250000528 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1112250000529 catalytic residue [active] 1112250000530 putative FPP diphosphate binding site; other site 1112250000531 putative FPP binding hydrophobic cleft; other site 1112250000532 dimer interface [polypeptide binding]; other site 1112250000533 putative IPP diphosphate binding site; other site 1112250000534 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 1112250000535 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1112250000536 Protein export membrane protein; Region: SecD_SecF; pfam02355 1112250000537 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1112250000538 DHH family; Region: DHH; pfam01368 1112250000539 DHHA1 domain; Region: DHHA1; pfam02272 1112250000540 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 1112250000541 Helix-turn-helix domain; Region: HTH_17; pfam12728 1112250000542 Helix-turn-helix domain; Region: HTH_17; pfam12728 1112250000543 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1112250000544 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1112250000545 HIGH motif; other site 1112250000546 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1112250000547 active site 1112250000548 KMSKS motif; other site 1112250000549 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 1112250000550 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 1112250000551 Domain of unknown function DUF11; Region: DUF11; pfam01345 1112250000552 Domain of unknown function DUF11; Region: DUF11; pfam01345 1112250000553 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 1112250000554 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 1112250000555 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1112250000556 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 1112250000557 protein binding site [polypeptide binding]; other site 1112250000558 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1112250000559 Catalytic dyad [active] 1112250000560 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 1112250000561 ATP binding site [chemical binding]; other site 1112250000562 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 1112250000563 S17 interaction site [polypeptide binding]; other site 1112250000564 S8 interaction site; other site 1112250000565 16S rRNA interaction site [nucleotide binding]; other site 1112250000566 streptomycin interaction site [chemical binding]; other site 1112250000567 23S rRNA interaction site [nucleotide binding]; other site 1112250000568 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1112250000569 30S ribosomal protein S7; Validated; Region: PRK05302 1112250000570 elongation factor G; Reviewed; Region: PRK12739 1112250000571 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1112250000572 G1 box; other site 1112250000573 putative GEF interaction site [polypeptide binding]; other site 1112250000574 GTP/Mg2+ binding site [chemical binding]; other site 1112250000575 Switch I region; other site 1112250000576 G2 box; other site 1112250000577 G3 box; other site 1112250000578 Switch II region; other site 1112250000579 G4 box; other site 1112250000580 G5 box; other site 1112250000581 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 1112250000582 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 1112250000583 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 1112250000584 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1112250000585 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1112250000586 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1112250000587 FAD binding pocket [chemical binding]; other site 1112250000588 conserved FAD binding motif [chemical binding]; other site 1112250000589 phosphate binding motif [ion binding]; other site 1112250000590 beta-alpha-beta structure motif; other site 1112250000591 NAD binding pocket [chemical binding]; other site 1112250000592 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 1112250000593 homotrimer interaction site [polypeptide binding]; other site 1112250000594 zinc binding site [ion binding]; other site 1112250000595 CDP-binding sites; other site 1112250000596 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1112250000597 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1112250000598 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1112250000599 GTP1/OBG; Region: GTP1_OBG; pfam01018 1112250000600 Obg GTPase; Region: Obg; cd01898 1112250000601 G1 box; other site 1112250000602 GTP/Mg2+ binding site [chemical binding]; other site 1112250000603 Switch I region; other site 1112250000604 G2 box; other site 1112250000605 G3 box; other site 1112250000606 Switch II region; other site 1112250000607 G4 box; other site 1112250000608 G5 box; other site 1112250000609 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1112250000610 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 1112250000611 dimer interface [polypeptide binding]; other site 1112250000612 putative PBP binding regions; other site 1112250000613 ABC-ATPase subunit interface; other site 1112250000614 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1112250000615 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1112250000616 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 1112250000617 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1112250000618 putative metal binding residues [ion binding]; other site 1112250000619 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 1112250000620 thiamine phosphate binding site [chemical binding]; other site 1112250000621 active site 1112250000622 pyrophosphate binding site [ion binding]; other site 1112250000623 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1112250000624 substrate binding site [chemical binding]; other site 1112250000625 multimerization interface [polypeptide binding]; other site 1112250000626 ATP binding site [chemical binding]; other site 1112250000627 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000628 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000629 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000630 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000631 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000632 YtxH-like protein; Region: YtxH; pfam12732 1112250000633 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 1112250000634 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1112250000635 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1112250000636 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1112250000637 lipoprotein signal peptidase; Provisional; Region: PRK14787 1112250000638 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1112250000639 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 1112250000640 ATP cone domain; Region: ATP-cone; pfam03477 1112250000641 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1112250000642 Lumazine binding domain; Region: Lum_binding; pfam00677 1112250000643 Lumazine binding domain; Region: Lum_binding; pfam00677 1112250000644 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1112250000645 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 1112250000646 S-adenosylmethionine binding site [chemical binding]; other site 1112250000647 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1112250000648 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1112250000649 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1112250000650 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1112250000651 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1112250000652 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1112250000653 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1112250000654 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1112250000655 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 1112250000656 E3 interaction surface; other site 1112250000657 lipoyl attachment site [posttranslational modification]; other site 1112250000658 e3 binding domain; Region: E3_binding; pfam02817 1112250000659 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112250000660 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1112250000661 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1112250000662 putative active site [active] 1112250000663 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1112250000664 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1112250000665 Putative zinc ribbon domain; Region: DUF164; pfam02591 1112250000666 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1112250000667 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1112250000668 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 1112250000669 active site 1112250000670 serine hydroxymethyltransferase; Provisional; Region: PRK13580 1112250000671 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 1112250000672 dimer interface [polypeptide binding]; other site 1112250000673 active site 1112250000674 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1112250000675 folate binding site [chemical binding]; other site 1112250000676 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1112250000677 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1112250000678 oligomer interface [polypeptide binding]; other site 1112250000679 active site residues [active] 1112250000680 diaminopimelate epimerase; Region: DapF; TIGR00652 1112250000681 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1112250000682 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1112250000683 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1112250000684 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1112250000685 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 1112250000686 S-adenosylmethionine binding site [chemical binding]; other site 1112250000687 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 1112250000688 hypothetical protein; Provisional; Region: PRK05926 1112250000689 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 1112250000690 FeS/SAM binding site; other site 1112250000691 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 1112250000692 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 1112250000693 anti sigma factor interaction site; other site 1112250000694 regulatory phosphorylation site [posttranslational modification]; other site 1112250000695 FOG: CBS domain [General function prediction only]; Region: COG0517 1112250000696 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 1112250000697 Transporter associated domain; Region: CorC_HlyC; smart01091 1112250000698 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1112250000699 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 1112250000700 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1112250000701 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1112250000702 active site 1112250000703 DNA binding site [nucleotide binding] 1112250000704 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1112250000705 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1112250000706 RNA binding site [nucleotide binding]; other site 1112250000707 RNB domain; Region: RNB; pfam00773 1112250000708 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1112250000709 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1112250000710 nucleotide binding site [chemical binding]; other site 1112250000711 NEF interaction site [polypeptide binding]; other site 1112250000712 SBD interface [polypeptide binding]; other site 1112250000713 GrpE; Region: GrpE; pfam01025 1112250000714 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 1112250000715 dimer interface [polypeptide binding]; other site 1112250000716 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1112250000717 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 1112250000718 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1112250000719 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1112250000720 dimer interface [polypeptide binding]; other site 1112250000721 motif 1; other site 1112250000722 active site 1112250000723 motif 2; other site 1112250000724 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 1112250000725 putative deacylase active site [active] 1112250000726 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1112250000727 active site 1112250000728 motif 3; other site 1112250000729 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 1112250000730 anticodon binding site; other site 1112250000731 hypothetical protein; Validated; Region: PRK00647 1112250000732 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1112250000733 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1112250000734 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 1112250000735 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 1112250000736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112250000737 homodimer interface [polypeptide binding]; other site 1112250000738 catalytic residue [active] 1112250000739 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 1112250000740 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1112250000741 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 1112250000742 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 1112250000743 nucleotide binding site/active site [active] 1112250000744 HEAT repeats; Region: HEAT_2; pfam13646 1112250000745 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1112250000746 Na binding site [ion binding]; other site 1112250000747 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1112250000748 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 1112250000749 Peptidase C65 Otubain; Region: Peptidase_C65; pfam10275 1112250000750 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 1112250000751 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112250000752 substrate binding pocket [chemical binding]; other site 1112250000753 membrane-bound complex binding site; other site 1112250000754 hinge residues; other site 1112250000755 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1112250000756 putative hydrolase; Provisional; Region: PRK02113 1112250000757 GTPases [General function prediction only]; Region: HflX; COG2262 1112250000758 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1112250000759 HflX GTPase family; Region: HflX; cd01878 1112250000760 G1 box; other site 1112250000761 GTP/Mg2+ binding site [chemical binding]; other site 1112250000762 Switch I region; other site 1112250000763 G2 box; other site 1112250000764 G3 box; other site 1112250000765 Switch II region; other site 1112250000766 G4 box; other site 1112250000767 G5 box; other site 1112250000768 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1112250000769 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1112250000770 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 1112250000771 FeS/SAM binding site; other site 1112250000772 glycogen branching enzyme; Provisional; Region: PRK05402 1112250000773 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1112250000774 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1112250000775 active site 1112250000776 catalytic site [active] 1112250000777 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1112250000778 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000779 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000780 Autotransporter beta-domain; Region: Autotransporter; smart00869 1112250000781 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000782 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000783 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000784 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000785 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000786 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000787 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000788 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000789 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000790 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000791 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000792 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000793 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000794 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000795 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000796 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000797 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000798 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000799 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000800 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000801 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000802 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000803 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000804 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000805 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000806 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000807 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000808 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000809 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000810 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000811 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250000812 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250000813 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250000814 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1112250000815 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1112250000816 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1112250000817 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1112250000818 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1112250000819 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1112250000820 GatB domain; Region: GatB_Yqey; pfam02637 1112250000821 ribonuclease HIII; Provisional; Region: PRK00996 1112250000822 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1112250000823 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1112250000824 RNA/DNA hybrid binding site [nucleotide binding]; other site 1112250000825 active site 1112250000826 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1112250000827 Helix-turn-helix domain; Region: HTH_25; pfam13413 1112250000828 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1112250000829 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1112250000830 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1112250000831 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1112250000832 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1112250000833 catalytic residues [active] 1112250000834 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1112250000835 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 1112250000836 S-adenosylmethionine binding site [chemical binding]; other site 1112250000837 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 1112250000838 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 1112250000839 TPP-binding site; other site 1112250000840 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 1112250000841 PYR/PP interface [polypeptide binding]; other site 1112250000842 dimer interface [polypeptide binding]; other site 1112250000843 TPP binding site [chemical binding]; other site 1112250000844 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112250000845 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1112250000846 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1112250000847 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 1112250000848 generic binding surface II; other site 1112250000849 generic binding surface I; other site 1112250000850 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 1112250000851 triosephosphate isomerase; Provisional; Region: PRK14565 1112250000852 substrate binding site [chemical binding]; other site 1112250000853 dimer interface [polypeptide binding]; other site 1112250000854 catalytic triad [active] 1112250000855 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1112250000856 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 1112250000857 active site 1112250000858 catalytic residues [active] 1112250000859 metal binding site [ion binding]; metal-binding site 1112250000860 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 1112250000861 Maf-like protein; Region: Maf; pfam02545 1112250000862 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 1112250000863 active site 1112250000864 dimer interface [polypeptide binding]; other site 1112250000865 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1112250000866 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112250000867 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112250000868 ABC transporter; Region: ABC_tran_2; pfam12848 1112250000869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112250000870 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1112250000871 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1112250000872 active site 1112250000873 Int/Topo IB signature motif; other site 1112250000874 ribonuclease Z; Region: RNase_Z; TIGR02651 1112250000875 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1112250000876 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1112250000877 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 1112250000878 Walker A motif; other site 1112250000879 ATP binding site [chemical binding]; other site 1112250000880 Walker B motif; other site 1112250000881 arginine finger; other site 1112250000882 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1112250000883 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1112250000884 Glycoprotease family; Region: Peptidase_M22; pfam00814 1112250000885 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1112250000886 chaperone protein DnaJ; Provisional; Region: PRK14284 1112250000887 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 1112250000888 HSP70 interaction site [polypeptide binding]; other site 1112250000889 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1112250000890 Zn binding sites [ion binding]; other site 1112250000891 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1112250000892 dimer interface [polypeptide binding]; other site 1112250000893 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1112250000894 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 1112250000895 tetramer interface [polypeptide binding]; other site 1112250000896 TPP-binding site [chemical binding]; other site 1112250000897 heterodimer interface [polypeptide binding]; other site 1112250000898 phosphorylation loop region [posttranslational modification] 1112250000899 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1112250000900 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 1112250000901 alpha subunit interface [polypeptide binding]; other site 1112250000902 TPP binding site [chemical binding]; other site 1112250000903 heterodimer interface [polypeptide binding]; other site 1112250000904 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112250000905 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1112250000906 Competence protein; Region: Competence; pfam03772 1112250000907 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1112250000908 dimerization domain swap beta strand [polypeptide binding]; other site 1112250000909 regulatory protein interface [polypeptide binding]; other site 1112250000910 active site 1112250000911 regulatory phosphorylation site [posttranslational modification]; other site 1112250000912 phosphoenolpyruvate-protein phosphotransferase; Region: PTS_I_fam; TIGR01417 1112250000913 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1112250000914 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1112250000915 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1112250000916 hypothetical protein; Validated; Region: PRK00153 1112250000917 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 1112250000918 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 1112250000919 Walker A motif; other site 1112250000920 ATP binding site [chemical binding]; other site 1112250000921 Walker B motif; other site 1112250000922 arginine finger; other site 1112250000923 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1112250000924 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1112250000925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1112250000926 Zn2+ binding site [ion binding]; other site 1112250000927 Mg2+ binding site [ion binding]; other site 1112250000928 porphobilinogen deaminase; Provisional; Region: PRK01066 1112250000929 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1112250000930 domain interfaces; other site 1112250000931 active site 1112250000932 DNA repair protein RadA; Provisional; Region: PRK11823 1112250000933 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1112250000934 Walker A motif/ATP binding site; other site 1112250000935 ATP binding site [chemical binding]; other site 1112250000936 Walker B motif; other site 1112250000937 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1112250000938 ribonuclease III; Reviewed; Region: rnc; PRK00102 1112250000939 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 1112250000940 dimerization interface [polypeptide binding]; other site 1112250000941 active site 1112250000942 metal binding site [ion binding]; metal-binding site 1112250000943 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 1112250000944 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1112250000945 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1112250000946 active site 1112250000947 substrate binding site [chemical binding]; other site 1112250000948 metal binding site [ion binding]; metal-binding site 1112250000949 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1112250000950 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1112250000951 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1112250000952 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1112250000953 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1112250000954 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1112250000955 trimer interface [polypeptide binding]; other site 1112250000956 active site 1112250000957 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1112250000958 active site 1112250000959 phosphorylation site [posttranslational modification] 1112250000960 Helix-turn-helix domain; Region: HTH_17; pfam12728 1112250000961 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1112250000962 active site 1112250000963 phosphorylation site [posttranslational modification] 1112250000964 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1112250000965 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 1112250000966 Ligand Binding Site [chemical binding]; other site 1112250000967 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1112250000968 Clp amino terminal domain; Region: Clp_N; pfam02861 1112250000969 Clp amino terminal domain; Region: Clp_N; pfam02861 1112250000970 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 1112250000971 Walker A motif; other site 1112250000972 ATP binding site [chemical binding]; other site 1112250000973 Walker B motif; other site 1112250000974 arginine finger; other site 1112250000975 UvrB/uvrC motif; Region: UVR; pfam02151 1112250000976 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 1112250000977 Walker A motif; other site 1112250000978 ATP binding site [chemical binding]; other site 1112250000979 Walker B motif; other site 1112250000980 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1112250000981 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1112250000982 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1112250000983 PLD-like domain; Region: PLDc_2; pfam13091 1112250000984 putative active site [active] 1112250000985 catalytic site [active] 1112250000986 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 1112250000987 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 1112250000988 lipoyl attachment site [posttranslational modification]; other site 1112250000989 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK01061 1112250000990 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrD [Energy production and conversion]; Region: NqrD; COG1347 1112250000991 FMN-binding domain; Region: FMN_bind; cl01081 1112250000992 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1112250000993 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK01024 1112250000994 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1112250000995 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1112250000996 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1112250000997 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1112250000998 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 1112250000999 Walker A motif; other site 1112250001000 ATP binding site [chemical binding]; other site 1112250001001 Walker B motif; other site 1112250001002 arginine finger; other site 1112250001003 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 1112250001004 DnaA box-binding interface [nucleotide binding]; other site 1112250001005 TPR repeat; Region: TPR_11; pfam13414 1112250001006 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 1112250001007 binding surface 1112250001008 TPR motif; other site 1112250001009 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1112250001010 MraW methylase family; Region: Methyltransf_5; cl17771 1112250001011 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1112250001012 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1112250001013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1112250001014 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1112250001015 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1112250001016 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112250001017 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112250001018 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1112250001019 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 1112250001020 active site 1112250001021 metal binding site [ion binding]; metal-binding site 1112250001022 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 1112250001023 IHF - DNA interface [nucleotide binding]; other site 1112250001024 IHF dimer interface [polypeptide binding]; other site 1112250001025 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1112250001026 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 1112250001027 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1112250001028 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1112250001029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001030 Walker A/P-loop; other site 1112250001031 ATP binding site [chemical binding]; other site 1112250001032 Q-loop/lid; other site 1112250001033 ABC transporter signature motif; other site 1112250001034 Walker B; other site 1112250001035 D-loop; other site 1112250001036 H-loop/switch region; other site 1112250001037 nucleosidase; Provisional; Region: PRK05634 1112250001038 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 1112250001039 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 1112250001040 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1112250001041 active site 1112250001042 catalytic site [active] 1112250001043 substrate binding site [chemical binding]; other site 1112250001044 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 1112250001045 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 1112250001046 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 1112250001047 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1112250001048 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06300 1112250001049 enoyl-[acyl-carrier-protein] reductase; Region: PLN02730 1112250001050 NAD(P) binding site [chemical binding]; other site 1112250001051 active site 1112250001052 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1112250001053 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 1112250001054 RNA binding surface [nucleotide binding]; other site 1112250001055 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1112250001056 active site 1112250001057 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1112250001058 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1112250001059 minor groove reading motif; other site 1112250001060 helix-hairpin-helix signature motif; other site 1112250001061 substrate binding pocket [chemical binding]; other site 1112250001062 active site 1112250001063 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1112250001064 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1112250001065 DNA binding and oxoG recognition site [nucleotide binding] 1112250001066 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1112250001067 homodimer interface [polypeptide binding]; other site 1112250001068 metal binding site [ion binding]; metal-binding site 1112250001069 CAAX protease self-immunity; Region: Abi; pfam02517 1112250001070 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1112250001071 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1112250001072 active site 1112250001073 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1112250001074 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1112250001075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112250001076 catalytic residue [active] 1112250001077 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1112250001078 Domain of unknown function DUF21; Region: DUF21; pfam01595 1112250001079 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 1112250001080 Transporter associated domain; Region: CorC_HlyC; smart01091 1112250001081 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1112250001082 Domain of unknown function DUF21; Region: DUF21; pfam01595 1112250001083 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 1112250001084 Transporter associated domain; Region: CorC_HlyC; smart01091 1112250001085 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1112250001086 trimer interface [polypeptide binding]; other site 1112250001087 active site 1112250001088 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1112250001089 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 1112250001090 Walker A motif; other site 1112250001091 ATP binding site [chemical binding]; other site 1112250001092 Walker B motif; other site 1112250001093 arginine finger; other site 1112250001094 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1112250001095 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1112250001096 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 1112250001097 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 1112250001098 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1112250001099 active site 1112250001100 catalytic site [active] 1112250001101 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1112250001102 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1112250001103 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 1112250001104 dimer interface [polypeptide binding]; other site 1112250001105 ssDNA binding site [nucleotide binding]; other site 1112250001106 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1112250001107 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1112250001108 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 1112250001109 interface (dimer of trimers) [polypeptide binding]; other site 1112250001110 Substrate-binding/catalytic site; other site 1112250001111 Zn-binding sites [ion binding]; other site 1112250001112 Histone H1-like nucleoprotein HC2; Region: HC2; pfam07382 1112250001113 hypothetical protein; Provisional; Region: PRK05907 1112250001114 Predicted methyltransferases [General function prediction only]; Region: COG0313 1112250001115 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1112250001116 putative SAM binding site [chemical binding]; other site 1112250001117 homodimer interface [polypeptide binding]; other site 1112250001118 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 1112250001119 HemN C-terminal domain; Region: HemN_C; pfam06969 1112250001120 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1112250001121 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1112250001122 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1112250001123 TPP-binding site [chemical binding]; other site 1112250001124 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1112250001125 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1112250001126 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 1112250001127 E3 interaction surface; other site 1112250001128 lipoyl attachment site [posttranslational modification]; other site 1112250001129 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112250001130 uncharacterized protein, YfiH family; Region: TIGR00726 1112250001131 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1112250001132 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1112250001133 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 1112250001134 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 1112250001135 ADP-ribose binding site [chemical binding]; other site 1112250001136 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 1112250001137 ADP-ribose binding site [chemical binding]; other site 1112250001138 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1112250001139 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 1112250001140 catalytic loop [active] 1112250001141 iron binding site [ion binding]; other site 1112250001142 type III secretion system protein; Validated; Region: PRK05910 1112250001143 FHIPEP family; Region: FHIPEP; pfam00771 1112250001144 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 1112250001145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112250001146 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1112250001147 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 1112250001148 DNA binding residues [nucleotide binding] 1112250001149 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1112250001150 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1112250001151 active site 1112250001152 HIGH motif; other site 1112250001153 dimer interface [polypeptide binding]; other site 1112250001154 KMSKS motif; other site 1112250001155 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 1112250001156 RNA binding surface [nucleotide binding]; other site 1112250001157 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 1112250001158 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1112250001159 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1112250001160 GTP-binding protein LepA; Provisional; Region: PRK05433 1112250001161 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1112250001162 G1 box; other site 1112250001163 putative GEF interaction site [polypeptide binding]; other site 1112250001164 GTP/Mg2+ binding site [chemical binding]; other site 1112250001165 Switch I region; other site 1112250001166 G2 box; other site 1112250001167 G3 box; other site 1112250001168 Switch II region; other site 1112250001169 G4 box; other site 1112250001170 G5 box; other site 1112250001171 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 1112250001172 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 1112250001173 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1112250001174 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 1112250001175 ADP/ATP carrier protein family; Region: AAA; TIGR00769 1112250001176 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1112250001177 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 1112250001178 intersubunit interface [polypeptide binding]; other site 1112250001179 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1112250001180 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1112250001181 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1112250001182 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 1112250001183 ABC-ATPase subunit interface; other site 1112250001184 dimer interface [polypeptide binding]; other site 1112250001185 putative PBP binding regions; other site 1112250001186 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1112250001187 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1112250001188 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 1112250001189 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1112250001190 ABC-ATPase subunit interface; other site 1112250001191 dimer interface [polypeptide binding]; other site 1112250001192 putative PBP binding regions; other site 1112250001193 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1112250001194 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1112250001195 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1112250001196 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1112250001197 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 1112250001198 RIP metalloprotease RseP; Region: TIGR00054 1112250001199 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1112250001200 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1112250001201 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 1112250001202 putative substrate binding region [chemical binding]; other site 1112250001203 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1112250001204 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1112250001205 recombination protein F; Reviewed; Region: recF; PRK00064 1112250001206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001207 Walker A/P-loop; other site 1112250001208 ATP binding site [chemical binding]; other site 1112250001209 Q-loop/lid; other site 1112250001210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001211 ABC transporter signature motif; other site 1112250001212 Walker B; other site 1112250001213 D-loop; other site 1112250001214 H-loop/switch region; other site 1112250001215 DNA polymerase III subunit beta; Validated; Region: PRK05643 1112250001216 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 1112250001217 putative DNA binding surface [nucleotide binding]; other site 1112250001218 dimer interface [polypeptide binding]; other site 1112250001219 beta-clamp/clamp loader binding surface; other site 1112250001220 beta-clamp/translesion DNA polymerase binding surface; other site 1112250001221 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 1112250001222 SmpB-tmRNA interface; other site 1112250001223 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1112250001224 ApbE family; Region: ApbE; pfam02424 1112250001225 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 1112250001226 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1112250001227 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1112250001228 homodimer interface [polypeptide binding]; other site 1112250001229 NADP binding site [chemical binding]; other site 1112250001230 substrate binding site [chemical binding]; other site 1112250001231 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1112250001232 PLD-like domain; Region: PLDc_2; pfam13091 1112250001233 putative active site [active] 1112250001234 catalytic site [active] 1112250001235 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1112250001236 PLD-like domain; Region: PLDc_2; pfam13091 1112250001237 putative active site [active] 1112250001238 catalytic site [active] 1112250001239 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1112250001240 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1112250001241 4-alpha-glucanotransferase; Region: Glyco_hydro_77; pfam02446 1112250001242 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1112250001243 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 1112250001244 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1112250001245 FHIPEP family; Region: FHIPEP; pfam00771 1112250001246 type III secretion system protein; Validated; Region: PRK06298 1112250001247 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1112250001248 GTP-binding protein YchF; Reviewed; Region: PRK09601 1112250001249 YchF GTPase; Region: YchF; cd01900 1112250001250 G1 box; other site 1112250001251 GTP/Mg2+ binding site [chemical binding]; other site 1112250001252 Switch I region; other site 1112250001253 G2 box; other site 1112250001254 Switch II region; other site 1112250001255 G3 box; other site 1112250001256 G4 box; other site 1112250001257 G5 box; other site 1112250001258 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 1112250001259 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1112250001260 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1112250001261 active site 1112250001262 Riboflavin kinase; Region: Flavokinase; pfam01687 1112250001263 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00989 1112250001264 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1112250001265 RNA binding site [nucleotide binding]; other site 1112250001266 active site 1112250001267 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1112250001268 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1112250001269 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1112250001270 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1112250001271 G1 box; other site 1112250001272 putative GEF interaction site [polypeptide binding]; other site 1112250001273 GTP/Mg2+ binding site [chemical binding]; other site 1112250001274 Switch I region; other site 1112250001275 G2 box; other site 1112250001276 G3 box; other site 1112250001277 Switch II region; other site 1112250001278 G4 box; other site 1112250001279 G5 box; other site 1112250001280 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 1112250001281 Translation-initiation factor 2; Region: IF-2; pfam11987 1112250001282 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 1112250001283 transcription termination factor NusA; Region: NusA; TIGR01953 1112250001284 NusA N-terminal domain; Region: NusA_N; pfam08529 1112250001285 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 1112250001286 RNA binding site [nucleotide binding]; other site 1112250001287 homodimer interface [polypeptide binding]; other site 1112250001288 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 1112250001289 G-X-X-G motif; other site 1112250001290 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 1112250001291 G-X-X-G motif; other site 1112250001292 ribosomal protein S1; Region: rpsA; TIGR00717 1112250001293 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1112250001294 RNA binding site [nucleotide binding]; other site 1112250001295 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 1112250001296 RNA binding site [nucleotide binding]; other site 1112250001297 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 1112250001298 RNA binding site [nucleotide binding]; other site 1112250001299 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1112250001300 RNA binding site [nucleotide binding]; other site 1112250001301 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1112250001302 RNA binding site [nucleotide binding]; other site 1112250001303 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1112250001304 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112250001305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112250001306 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1112250001307 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1112250001308 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 1112250001309 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1112250001310 chromosomal replication initiation protein; Provisional; Region: PRK12422 1112250001311 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1112250001312 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 1112250001313 Walker A motif; other site 1112250001314 ATP binding site [chemical binding]; other site 1112250001315 Walker B motif; other site 1112250001316 arginine finger; other site 1112250001317 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 1112250001318 DnaA box-binding interface [nucleotide binding]; other site 1112250001319 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 1112250001320 homodimer interface [polypeptide binding]; other site 1112250001321 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1112250001322 active site pocket [active] 1112250001323 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1112250001324 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 1112250001325 E3 interaction surface; other site 1112250001326 lipoyl attachment site [posttranslational modification]; other site 1112250001327 e3 binding domain; Region: E3_binding; pfam02817 1112250001328 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112250001329 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1112250001330 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 1112250001331 alpha subunit interface [polypeptide binding]; other site 1112250001332 TPP binding site [chemical binding]; other site 1112250001333 heterodimer interface [polypeptide binding]; other site 1112250001334 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112250001335 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1112250001336 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 1112250001337 tetramer interface [polypeptide binding]; other site 1112250001338 TPP-binding site [chemical binding]; other site 1112250001339 heterodimer interface [polypeptide binding]; other site 1112250001340 phosphorylation loop region [posttranslational modification] 1112250001341 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1112250001342 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1112250001343 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 1112250001344 trimer interface [polypeptide binding]; other site 1112250001345 active site 1112250001346 UDP-GlcNAc binding site [chemical binding]; other site 1112250001347 lipid binding site [chemical binding]; lipid-binding site 1112250001348 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1112250001349 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1112250001350 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112250001351 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112250001352 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112250001353 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112250001354 Surface antigen; Region: Bac_surface_Ag; pfam01103 1112250001355 recombination protein RecR; Reviewed; Region: recR; PRK00076 1112250001356 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 1112250001357 putative active site [active] 1112250001358 putative metal-binding site [ion binding]; other site 1112250001359 tetramer interface [polypeptide binding]; other site 1112250001360 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1112250001361 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 1112250001362 dimer interface [polypeptide binding]; other site 1112250001363 active site 1112250001364 CoA binding pocket [chemical binding]; other site 1112250001365 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1112250001366 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1112250001367 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1112250001368 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1112250001369 NAD(P) binding site [chemical binding]; other site 1112250001370 homotetramer interface [polypeptide binding]; other site 1112250001371 homodimer interface [polypeptide binding]; other site 1112250001372 active site 1112250001373 acyl carrier protein; Provisional; Region: acpP; PRK00982 1112250001374 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112250001375 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 1112250001376 ligand binding site [chemical binding]; other site 1112250001377 flexible hinge region; other site 1112250001378 TLC ATP/ADP transporter; Region: TLC; cl03940 1112250001379 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1112250001380 Na2 binding site [ion binding]; other site 1112250001381 putative substrate binding site 1 [chemical binding]; other site 1112250001382 Na binding site 1 [ion binding]; other site 1112250001383 putative substrate binding site 2 [chemical binding]; other site 1112250001384 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1112250001385 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1112250001386 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1112250001387 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1112250001388 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 1112250001389 Divalent cation transporter; Region: MgtE; pfam01769 1112250001390 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1112250001391 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 1112250001392 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1112250001393 putative active site; other site 1112250001394 catalytic residue [active] 1112250001395 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1112250001396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001397 Walker A/P-loop; other site 1112250001398 ATP binding site [chemical binding]; other site 1112250001399 Q-loop/lid; other site 1112250001400 ABC transporter signature motif; other site 1112250001401 Walker B; other site 1112250001402 D-loop; other site 1112250001403 H-loop/switch region; other site 1112250001404 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1112250001405 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1112250001406 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1112250001407 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1112250001408 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1112250001409 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 1112250001410 ATP binding site [chemical binding]; other site 1112250001411 Mg2+ binding site [ion binding]; other site 1112250001412 G-X-G motif; other site 1112250001413 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 1112250001414 anchoring element; other site 1112250001415 dimer interface [polypeptide binding]; other site 1112250001416 ATP binding site [chemical binding]; other site 1112250001417 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 1112250001418 active site 1112250001419 putative metal-binding site [ion binding]; other site 1112250001420 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1112250001421 DNA gyrase, A subunit; Region: gyrA; TIGR01063 1112250001422 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1112250001423 CAP-like domain; other site 1112250001424 active site 1112250001425 primary dimer interface [polypeptide binding]; other site 1112250001426 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112250001427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112250001428 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112250001429 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112250001430 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112250001431 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112250001432 thymidylate kinase; Validated; Region: tmk; PRK00698 1112250001433 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 1112250001434 TMP-binding site; other site 1112250001435 ATP-binding site [chemical binding]; other site 1112250001436 DNA polymerase III subunit delta'; Validated; Region: PRK05917 1112250001437 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1112250001438 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1112250001439 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1112250001440 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1112250001441 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 1112250001442 active site 1112250001443 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 1112250001444 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1112250001445 HOOK protein; Region: HOOK; pfam05622 1112250001446 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1112250001447 prenyltransferase; Reviewed; Region: ubiA; PRK12876 1112250001448 UbiA prenyltransferase family; Region: UbiA; pfam01040 1112250001449 aromatic acid decarboxylase; Validated; Region: PRK05920 1112250001450 Flavoprotein; Region: Flavoprotein; pfam02441 1112250001451 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1112250001452 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1112250001453 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1112250001454 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1112250001455 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1112250001456 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1112250001457 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1112250001458 Ligand Binding Site [chemical binding]; other site 1112250001459 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1112250001460 SEC-C motif; Region: SEC-C; pfam02810 1112250001461 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1112250001462 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1112250001463 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 1112250001464 FeS/SAM binding site; other site 1112250001465 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1112250001466 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1112250001467 FtsX-like permease family; Region: FtsX; pfam02687 1112250001468 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1112250001469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1112250001470 Walker A/P-loop; other site 1112250001471 ATP binding site [chemical binding]; other site 1112250001472 Q-loop/lid; other site 1112250001473 ABC transporter signature motif; other site 1112250001474 Walker B; other site 1112250001475 D-loop; other site 1112250001476 H-loop/switch region; other site 1112250001477 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 1112250001478 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 1112250001479 23S rRNA interface [nucleotide binding]; other site 1112250001480 L3 interface [polypeptide binding]; other site 1112250001481 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1112250001482 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1112250001483 NlpC/P60 family; Region: NLPC_P60; cl17555 1112250001484 adenylate kinase; Reviewed; Region: adk; PRK00279 1112250001485 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 1112250001486 AMP-binding site [chemical binding]; other site 1112250001487 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1112250001488 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 1112250001489 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1112250001490 putative active site [active] 1112250001491 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1112250001492 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1112250001493 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1112250001494 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112250001495 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1112250001496 peptide binding site [polypeptide binding]; other site 1112250001497 UGMP family protein; Validated; Region: PRK09604 1112250001498 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1112250001499 arginine repressor; Region: argR_whole; TIGR01529 1112250001500 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1112250001501 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1112250001502 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1112250001503 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 1112250001504 dimer interface [polypeptide binding]; other site 1112250001505 conserved gate region; other site 1112250001506 putative PBP binding loops; other site 1112250001507 ABC-ATPase subunit interface; other site 1112250001508 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1112250001509 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001510 Walker A/P-loop; other site 1112250001511 ATP binding site [chemical binding]; other site 1112250001512 Q-loop/lid; other site 1112250001513 ABC transporter signature motif; other site 1112250001514 Walker B; other site 1112250001515 D-loop; other site 1112250001516 H-loop/switch region; other site 1112250001517 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1112250001518 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 1112250001519 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 1112250001520 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1112250001521 S-adenosylmethionine binding site [chemical binding]; other site 1112250001522 IncA protein; Region: IncA; pfam04156 1112250001523 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1112250001524 dimer interface [polypeptide binding]; other site 1112250001525 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 1112250001526 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1112250001527 substrate binding site [chemical binding]; other site 1112250001528 hexamer interface [polypeptide binding]; other site 1112250001529 metal binding site [ion binding]; metal-binding site 1112250001530 elongation factor P; Provisional; Region: PRK12426 1112250001531 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1112250001532 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 1112250001533 RNA binding site [nucleotide binding]; other site 1112250001534 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 1112250001535 RNA binding site [nucleotide binding]; other site 1112250001536 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1112250001537 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 1112250001538 carboxyltransferase (CT) interaction site; other site 1112250001539 biotinylation site [posttranslational modification]; other site 1112250001540 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1112250001541 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112250001542 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112250001543 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1112250001544 Family of unknown function (DUF648); Region: DUF648; pfam04890 1112250001545 Family of unknown function (DUF648); Region: DUF648; pfam04890 1112250001546 Family of unknown function (DUF648); Region: DUF648; pfam04890 1112250001547 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 1112250001548 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 1112250001549 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 1112250001550 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1112250001551 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 1112250001552 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 1112250001553 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1112250001554 membrane-attack complex / perforin; Region: MACPF; smart00457 1112250001555 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1112250001556 Adenosine/AMP deaminase. Adenosine deaminases (ADAs) are present in pro- and eukaryotic organisms and catalyze the zinc dependent irreversible deamination of adenosine nucleosides to inosine nucleosides and ammonia. The eukaryotic AMP deaminase...; Region: ADA_AMPD; cd00443 1112250001557 active site 1112250001558 GMP synthase; Reviewed; Region: guaA; PRK00074 1112250001559 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1112250001560 AMP/PPi binding site [chemical binding]; other site 1112250001561 candidate oxyanion hole; other site 1112250001562 catalytic triad [active] 1112250001563 potential glutamine specificity residues [chemical binding]; other site 1112250001564 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 1112250001565 ATP Binding subdomain [chemical binding]; other site 1112250001566 Ligand Binding sites [chemical binding]; other site 1112250001567 Dimerization subdomain; other site 1112250001568 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 1112250001569 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1112250001570 active site 1112250001571 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 1112250001572 putative active site pocket [active] 1112250001573 dimerization interface [polypeptide binding]; other site 1112250001574 putative catalytic residue [active] 1112250001575 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1112250001576 queuine tRNA-ribosyltransferase; Provisional; Region: PRK01008 1112250001577 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1112250001578 putative disulfide oxidoreductase; Provisional; Region: PRK00611 1112250001579 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1112250001580 Thioredoxin; Region: Thioredoxin_4; cl17273 1112250001581 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cl01729 1112250001582 putative active site [active] 1112250001583 redox center [active] 1112250001584 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1112250001585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001586 Walker A/P-loop; other site 1112250001587 ATP binding site [chemical binding]; other site 1112250001588 Q-loop/lid; other site 1112250001589 ABC transporter signature motif; other site 1112250001590 Walker B; other site 1112250001591 D-loop; other site 1112250001592 H-loop/switch region; other site 1112250001593 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1112250001594 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1112250001595 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1112250001596 Ligand binding site; other site 1112250001597 oligomer interface; other site 1112250001598 CTP synthetase; Validated; Region: pyrG; PRK05380 1112250001599 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 1112250001600 Catalytic site [active] 1112250001601 active site 1112250001602 UTP binding site [chemical binding]; other site 1112250001603 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1112250001604 active site 1112250001605 putative oxyanion hole; other site 1112250001606 catalytic triad [active] 1112250001607 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1112250001608 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1112250001609 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1112250001610 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112250001611 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1112250001612 peptide binding site [polypeptide binding]; other site 1112250001613 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1112250001614 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112250001615 peptide binding site [polypeptide binding]; other site 1112250001616 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112250001617 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 1112250001618 dimer interface [polypeptide binding]; other site 1112250001619 conserved gate region; other site 1112250001620 putative PBP binding loops; other site 1112250001621 ABC-ATPase subunit interface; other site 1112250001622 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112250001623 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1112250001624 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 1112250001625 dimer interface [polypeptide binding]; other site 1112250001626 conserved gate region; other site 1112250001627 putative PBP binding loops; other site 1112250001628 ABC-ATPase subunit interface; other site 1112250001629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112250001630 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1112250001631 Walker A/P-loop; other site 1112250001632 ATP binding site [chemical binding]; other site 1112250001633 Q-loop/lid; other site 1112250001634 ABC transporter signature motif; other site 1112250001635 Walker B; other site 1112250001636 D-loop; other site 1112250001637 H-loop/switch region; other site 1112250001638 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112250001639 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1112250001640 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112250001641 Walker A/P-loop; other site 1112250001642 ATP binding site [chemical binding]; other site 1112250001643 Q-loop/lid; other site 1112250001644 ABC transporter signature motif; other site 1112250001645 Walker B; other site 1112250001646 D-loop; other site 1112250001647 H-loop/switch region; other site 1112250001648 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112250001649 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 1112250001650 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1112250001651 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; cd00625 1112250001652 transmembrane helices; other site 1112250001653 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 1112250001654 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 1112250001655 active site 1112250001656 ADP/pyrophosphate binding site [chemical binding]; other site 1112250001657 dimerization interface [polypeptide binding]; other site 1112250001658 allosteric effector site; other site 1112250001659 fructose-1,6-bisphosphate binding site; other site 1112250001660 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1112250001661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1112250001662 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 1112250001663 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 1112250001664 active site 1112250001665 ADP/pyrophosphate binding site [chemical binding]; other site 1112250001666 dimerization interface [polypeptide binding]; other site 1112250001667 allosteric effector site; other site 1112250001668 fructose-1,6-bisphosphate binding site; other site 1112250001669 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1112250001670 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1112250001671 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1112250001672 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1112250001673 HIGH motif; other site 1112250001674 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1112250001675 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112250001676 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112250001677 active site 1112250001678 KMSKS motif; other site 1112250001679 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1112250001680 tRNA binding surface [nucleotide binding]; other site 1112250001681 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1112250001682 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1112250001683 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1112250001684 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1112250001685 TrkA-N domain; Region: TrkA_N; pfam02254 1112250001686 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1112250001687 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 1112250001688 nucleotide binding pocket [chemical binding]; other site 1112250001689 K-X-D-G motif; other site 1112250001690 catalytic site [active] 1112250001691 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1112250001692 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1112250001693 Helix-hairpin-helix motif; Region: HHH; pfam00633 1112250001694 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 1112250001695 Dimer interface [polypeptide binding]; other site 1112250001696 BRCT sequence motif; other site 1112250001697 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1112250001698 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1112250001699 active site 1112250001700 ATP binding site [chemical binding]; other site 1112250001701 substrate binding site [chemical binding]; other site 1112250001702 activation loop (A-loop); other site 1112250001703 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1112250001704 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1112250001705 IncA protein; Region: IncA; pfam04156 1112250001706 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1112250001707 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1112250001708 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 1112250001709 TPR motif; other site 1112250001710 binding surface 1112250001711 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250001712 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250001713 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250001714 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250001715 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250001716 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 1112250001717 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250001718 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250001719 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1112250001720 Clp amino terminal domain; Region: Clp_N; pfam02861 1112250001721 Clp amino terminal domain; Region: Clp_N; pfam02861 1112250001722 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 1112250001723 Walker A motif; other site 1112250001724 ATP binding site [chemical binding]; other site 1112250001725 Walker B motif; other site 1112250001726 arginine finger; other site 1112250001727 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 1112250001728 Walker A motif; other site 1112250001729 ATP binding site [chemical binding]; other site 1112250001730 Walker B motif; other site 1112250001731 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1112250001732 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1112250001733 mce related protein; Region: MCE; pfam02470 1112250001734 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1112250001735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001736 Walker A/P-loop; other site 1112250001737 ATP binding site [chemical binding]; other site 1112250001738 Q-loop/lid; other site 1112250001739 ABC transporter signature motif; other site 1112250001740 Walker B; other site 1112250001741 D-loop; other site 1112250001742 H-loop/switch region; other site 1112250001743 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1112250001744 Permease; Region: Permease; pfam02405 1112250001745 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 1112250001746 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 1112250001747 inhibitor-cofactor binding pocket; inhibition site 1112250001748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112250001749 catalytic residue [active] 1112250001750 hypothetical protein; Validated; Region: PRK00228 1112250001751 Uncharacterized conserved protein [Function unknown]; Region: COG1259 1112250001752 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 1112250001753 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1112250001754 active site 1112250001755 dimer interface [polypeptide binding]; other site 1112250001756 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 1112250001757 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 1112250001758 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 1112250001759 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1112250001760 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1112250001761 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1112250001762 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1112250001763 active site 1112250001764 Zn binding site [ion binding]; other site 1112250001765 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 1112250001766 oligomerisation interface [polypeptide binding]; other site 1112250001767 mobile loop; other site 1112250001768 roof hairpin; other site 1112250001769 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1112250001770 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 1112250001771 ring oligomerisation interface [polypeptide binding]; other site 1112250001772 ATP/Mg binding site [chemical binding]; other site 1112250001773 stacking interactions; other site 1112250001774 hinge regions; other site 1112250001775 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1112250001776 conserved cys residue [active] 1112250001777 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112250001778 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1112250001779 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 1112250001780 Walker A motif; other site 1112250001781 ATP binding site [chemical binding]; other site 1112250001782 Walker B motif; other site 1112250001783 Family description; Region: UvrD_C_2; pfam13538 1112250001784 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 1112250001785 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1112250001786 active site 1112250001787 HIGH motif; other site 1112250001788 KMSKS motif; other site 1112250001789 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1112250001790 tRNA binding surface [nucleotide binding]; other site 1112250001791 anticodon binding site; other site 1112250001792 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1112250001793 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 1112250001794 catalytic site [active] 1112250001795 G-X2-G-X-G-K; other site 1112250001796 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1112250001797 RNA/DNA hybrid binding site [nucleotide binding]; other site 1112250001798 active site 1112250001799 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1112250001800 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 1112250001801 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1112250001802 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 1112250001803 active site 1112250001804 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14522 1112250001805 signal recognition particle protein; Provisional; Region: PRK10867 1112250001806 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1112250001807 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 1112250001808 P loop; other site 1112250001809 GTP binding site [chemical binding]; other site 1112250001810 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1112250001811 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1112250001812 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 1112250001813 S-adenosylmethionine binding site [chemical binding]; other site 1112250001814 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1112250001815 PCRF domain; Region: PCRF; pfam03462 1112250001816 RF-1 domain; Region: RF-1; pfam00472 1112250001817 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1112250001818 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 1112250001819 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1112250001820 Catalytic site [active] 1112250001821 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 1112250001822 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 1112250001823 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1112250001824 HIGH motif; other site 1112250001825 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1112250001826 active site 1112250001827 KMSKS motif; other site 1112250001828 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1112250001829 tRNA binding surface [nucleotide binding]; other site 1112250001830 anticodon binding site; other site 1112250001831 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1112250001832 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1112250001833 putative active site [active] 1112250001834 PhoH-like protein; Region: PhoH; pfam02562 1112250001835 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1112250001836 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1112250001837 BNR repeat-like domain; Region: BNR_2; pfam13088 1112250001838 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1112250001839 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1112250001840 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1112250001841 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1112250001842 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1112250001843 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1112250001844 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 1112250001845 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1112250001846 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1112250001847 putative acyl-acceptor binding pocket; other site 1112250001848 pyruvate kinase; Provisional; Region: PRK05826 1112250001849 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1112250001850 domain interfaces; other site 1112250001851 active site 1112250001852 excinuclease ABC subunit A; Provisional; Region: PRK00635 1112250001853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001854 Walker A/P-loop; other site 1112250001855 ATP binding site [chemical binding]; other site 1112250001856 Q-loop/lid; other site 1112250001857 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1112250001858 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1112250001859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001860 Walker A/P-loop; other site 1112250001861 ATP binding site [chemical binding]; other site 1112250001862 Q-loop/lid; other site 1112250001863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001864 ATP binding site [chemical binding]; other site 1112250001865 Q-loop/lid; other site 1112250001866 ABC transporter signature motif; other site 1112250001867 Walker B; other site 1112250001868 D-loop; other site 1112250001869 H-loop/switch region; other site 1112250001870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250001871 Walker A/P-loop; other site 1112250001872 ATP binding site [chemical binding]; other site 1112250001873 Q-loop/lid; other site 1112250001874 ABC transporter signature motif; other site 1112250001875 Walker B; other site 1112250001876 D-loop; other site 1112250001877 H-loop/switch region; other site 1112250001878 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 1112250001879 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1112250001880 active site 1112250001881 ATP binding site [chemical binding]; other site 1112250001882 substrate binding site [chemical binding]; other site 1112250001883 activation loop (A-loop); other site 1112250001884 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1112250001885 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1112250001886 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112250001887 active site 1112250001888 HIGH motif; other site 1112250001889 nucleotide binding site [chemical binding]; other site 1112250001890 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1112250001891 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1112250001892 active site 1112250001893 KMSKS motif; other site 1112250001894 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1112250001895 tRNA binding surface [nucleotide binding]; other site 1112250001896 anticodon binding site; other site 1112250001897 V-type ATP synthase subunit K; Provisional; Region: PRK09621 1112250001898 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1112250001899 V-type ATP synthase subunit I; Validated; Region: PRK05771 1112250001900 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 1112250001901 V-type ATP synthase subunit D; Provisional; Region: PRK02195 1112250001902 V-type ATP synthase subunit B; Provisional; Region: PRK02118 1112250001903 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1112250001904 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1112250001905 Walker A motif homologous position; other site 1112250001906 Walker B motif; other site 1112250001907 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1112250001908 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1112250001909 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 1112250001910 Walker A motif/ATP binding site; other site 1112250001911 Walker B motif; other site 1112250001912 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1112250001913 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 1112250001914 V-type ATP synthase subunit E; Provisional; Region: PRK01005 1112250001915 V-type ATP synthase subunit E; Provisional; Region: PRK01558 1112250001916 transaldolase-like protein; Provisional; Region: PTZ00411 1112250001917 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1112250001918 active site 1112250001919 dimer interface [polypeptide binding]; other site 1112250001920 catalytic residue [active] 1112250001921 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1112250001922 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 1112250001923 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1112250001924 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1112250001925 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1112250001926 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1112250001927 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1112250001928 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1112250001929 DNA binding site [nucleotide binding] 1112250001930 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1112250001931 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 1112250001932 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1112250001933 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1112250001934 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 1112250001935 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 1112250001936 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1112250001937 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 1112250001938 RPB3 interaction site [polypeptide binding]; other site 1112250001939 RPB1 interaction site [polypeptide binding]; other site 1112250001940 RPB11 interaction site [polypeptide binding]; other site 1112250001941 RPB10 interaction site [polypeptide binding]; other site 1112250001942 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 1112250001943 L11 interface [polypeptide binding]; other site 1112250001944 putative EF-Tu interaction site [polypeptide binding]; other site 1112250001945 putative EF-G interaction site [polypeptide binding]; other site 1112250001946 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 1112250001947 23S rRNA interface [nucleotide binding]; other site 1112250001948 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1112250001949 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 1112250001950 mRNA/rRNA interface [nucleotide binding]; other site 1112250001951 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1112250001952 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 1112250001953 23S rRNA interface [nucleotide binding]; other site 1112250001954 L7/L12 interface [polypeptide binding]; other site 1112250001955 putative thiostrepton binding site; other site 1112250001956 L25 interface [polypeptide binding]; other site 1112250001957 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1112250001958 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1112250001959 putative homodimer interface [polypeptide binding]; other site 1112250001960 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1112250001961 heterodimer interface [polypeptide binding]; other site 1112250001962 homodimer interface [polypeptide binding]; other site 1112250001963 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1112250001964 elongation factor Tu; Reviewed; Region: PRK12735 1112250001965 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1112250001966 G1 box; other site 1112250001967 GEF interaction site [polypeptide binding]; other site 1112250001968 GTP/Mg2+ binding site [chemical binding]; other site 1112250001969 Switch I region; other site 1112250001970 G2 box; other site 1112250001971 G3 box; other site 1112250001972 Switch II region; other site 1112250001973 G4 box; other site 1112250001974 G5 box; other site 1112250001975 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 1112250001976 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 1112250001977 Antibiotic Binding Site [chemical binding]; other site 1112250001978 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 1112250001979 rRNA binding site [nucleotide binding]; other site 1112250001980 predicted 30S ribosome binding site; other site 1112250001981 Fe-S metabolism associated domain; Region: SufE; cl00951 1112250001982 BioY family; Region: BioY; pfam02632 1112250001983 Protein of unknown function (DUF687); Region: DUF687; pfam05095 1112250001984 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1112250001985 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1112250001986 dimer interface [polypeptide binding]; other site 1112250001987 active site 1112250001988 catalytic residue [active] 1112250001989 aspartate kinase; Provisional; Region: PRK05925 1112250001990 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 1112250001991 putative catalytic residues [active] 1112250001992 nucleotide binding site [chemical binding]; other site 1112250001993 aspartate binding site [chemical binding]; other site 1112250001994 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 1112250001995 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1112250001996 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1112250001997 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1112250001998 phenylalanine 4-monooxygenase; Reviewed; Region: phhA; PRK11913 1112250001999 cofactor binding site; other site 1112250002000 metal binding site [ion binding]; metal-binding site 1112250002001 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1112250002002 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 1112250002003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112250002004 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1112250002005 NAD(P) binding site [chemical binding]; other site 1112250002006 active site 1112250002007 biotin synthase; Region: bioB; TIGR00433 1112250002008 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 1112250002009 FeS/SAM binding site; other site 1112250002010 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1112250002011 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1112250002012 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1112250002013 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112250002014 catalytic residue [active] 1112250002015 AAA domain; Region: AAA_26; pfam13500 1112250002016 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1112250002017 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 1112250002018 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 1112250002019 inhibitor-cofactor binding pocket; inhibition site 1112250002020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112250002021 catalytic residue [active] 1112250002022 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1112250002023 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 1112250002024 hinge; other site 1112250002025 active site 1112250002026 shikimate kinase; Provisional; Region: PRK00625 1112250002027 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1112250002028 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1112250002029 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1112250002030 Tetramer interface [polypeptide binding]; other site 1112250002031 active site 1112250002032 FMN-binding site [chemical binding]; other site 1112250002033 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1112250002034 active site 1112250002035 dimer interface [polypeptide binding]; other site 1112250002036 metal binding site [ion binding]; metal-binding site 1112250002037 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 1112250002038 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1112250002039 active site 1112250002040 catalytic residue [active] 1112250002041 dimer interface [polypeptide binding]; other site 1112250002042 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1112250002043 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1112250002044 shikimate binding site; other site 1112250002045 NAD(P) binding site [chemical binding]; other site 1112250002046 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1112250002047 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1112250002048 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC) [Amino acid transport and metabolism]; Region: COG1945 1112250002049 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1112250002050 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1112250002051 malate dehydrogenase; Provisional; Region: PRK05442 1112250002052 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1112250002053 NAD(P) binding site [chemical binding]; other site 1112250002054 LDH/MDH dimer interface [polypeptide binding]; other site 1112250002055 substrate binding site [chemical binding]; other site 1112250002056 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 1112250002057 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 1112250002058 active site 1112250002059 dimer interface [polypeptide binding]; other site 1112250002060 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 1112250002061 dimer interface [polypeptide binding]; other site 1112250002062 active site 1112250002063 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1112250002064 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 1112250002065 active site 1112250002066 DNA binding site [nucleotide binding] 1112250002067 Int/Topo IB signature motif; other site 1112250002068 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1112250002069 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1112250002070 Histone methylation protein DOT1; Region: DOT1; pfam08123 1112250002071 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 1112250002072 S-adenosylmethionine binding site [chemical binding]; other site 1112250002073 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1112250002074 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1112250002075 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1112250002076 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1112250002077 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1112250002078 Active site serine [active] 1112250002079 Na+/H+ antiporter, NhaD family; Region: NhaD; TIGR00775 1112250002080 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1112250002081 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1112250002082 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1112250002083 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1112250002084 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 1112250002085 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1112250002086 Class II fumarases; Region: Fumarase_classII; cd01362 1112250002087 active site 1112250002088 tetramer interface [polypeptide binding]; other site 1112250002089 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1112250002090 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 1112250002091 dimer interface [polypeptide binding]; other site 1112250002092 conserved gate region; other site 1112250002093 putative PBP binding loops; other site 1112250002094 ABC-ATPase subunit interface; other site 1112250002095 NMT1/THI5 like; Region: NMT1; pfam09084 1112250002096 adenylate kinase; Region: adk; TIGR01351 1112250002097 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1112250002098 active site 1112250002099 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1112250002100 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1112250002101 methionine aminopeptidase; Provisional; Region: PRK12318 1112250002102 SEC-C motif; Region: SEC-C; pfam02810 1112250002103 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 1112250002104 active site 1112250002105 Protein of unknown function (DUF720); Region: DUF720; pfam05302 1112250002106 Protein of unknown function (DUF720); Region: DUF720; pfam05302 1112250002107 Protein of unknown function (DUF720); Region: DUF720; pfam05302 1112250002108 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 1112250002109 nucleoside/Zn binding site; other site 1112250002110 dimer interface [polypeptide binding]; other site 1112250002111 catalytic motif [active] 1112250002112 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 1112250002113 16S/18S rRNA binding site [nucleotide binding]; other site 1112250002114 S13e-L30e interaction site [polypeptide binding]; other site 1112250002115 25S rRNA binding site [nucleotide binding]; other site 1112250002116 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1112250002117 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1112250002118 RNase E interface [polypeptide binding]; other site 1112250002119 trimer interface [polypeptide binding]; other site 1112250002120 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1112250002121 RNase E interface [polypeptide binding]; other site 1112250002122 trimer interface [polypeptide binding]; other site 1112250002123 active site 1112250002124 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 1112250002125 putative nucleic acid binding region [nucleotide binding]; other site 1112250002126 G-X-X-G motif; other site 1112250002127 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 1112250002128 RNA binding site [nucleotide binding]; other site 1112250002129 domain interface; other site 1112250002130 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1112250002131 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 1112250002132 Walker A motif; other site 1112250002133 ATP binding site [chemical binding]; other site 1112250002134 Walker B motif; other site 1112250002135 arginine finger; other site 1112250002136 Peptidase family M41; Region: Peptidase_M41; pfam01434 1112250002137 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1112250002138 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 1112250002139 Ligand Binding Site [chemical binding]; other site 1112250002140 Predicted permeases [General function prediction only]; Region: COG0795 1112250002141 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1112250002142 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1112250002143 Predicted permeases [General function prediction only]; Region: COG0795 1112250002144 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1112250002145 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1112250002146 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 1112250002147 motif 1; other site 1112250002148 dimer interface [polypeptide binding]; other site 1112250002149 active site 1112250002150 motif 2; other site 1112250002151 motif 3; other site 1112250002152 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1112250002153 23S rRNA binding site [nucleotide binding]; other site 1112250002154 L21 binding site [polypeptide binding]; other site 1112250002155 L13 binding site [polypeptide binding]; other site 1112250002156 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1112250002157 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1112250002158 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1112250002159 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1112250002160 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1112250002161 putative RNA binding site [nucleotide binding]; other site 1112250002162 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1112250002163 FAD binding domain; Region: FAD_binding_4; pfam01565 1112250002164 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1112250002165 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1112250002166 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1112250002167 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1112250002168 dimer interface [polypeptide binding]; other site 1112250002169 putative radical transfer pathway; other site 1112250002170 diiron center [ion binding]; other site 1112250002171 tyrosyl radical; other site 1112250002172 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 1112250002173 ATP cone domain; Region: ATP-cone; pfam03477 1112250002174 ATP cone domain; Region: ATP-cone; pfam03477 1112250002175 ATP cone domain; Region: ATP-cone; pfam03477 1112250002176 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1112250002177 active site 1112250002178 dimer interface [polypeptide binding]; other site 1112250002179 catalytic residues [active] 1112250002180 effector binding site; other site 1112250002181 R2 peptide binding site; other site 1112250002182 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1112250002183 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1112250002184 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1112250002185 RmuC family; Region: RmuC; pfam02646 1112250002186 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1112250002187 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1112250002188 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1112250002189 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1112250002190 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1112250002191 hypothetical protein; Provisional; Region: PRK08201 1112250002192 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1112250002193 metal binding site [ion binding]; metal-binding site 1112250002194 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1112250002195 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1112250002196 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 1112250002197 protein binding site [polypeptide binding]; other site 1112250002198 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 1112250002199 protein binding site [polypeptide binding]; other site 1112250002200 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1112250002201 CoA binding domain; Region: CoA_binding; smart00881 1112250002202 CoA-ligase; Region: Ligase_CoA; pfam00549 1112250002203 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1112250002204 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1112250002205 CoA-ligase; Region: Ligase_CoA; pfam00549 1112250002206 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1112250002207 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 1112250002208 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1112250002209 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1112250002210 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1112250002211 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1112250002212 aromatic amino acid transport protein; Region: araaP; TIGR00837 1112250002213 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1112250002214 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 1112250002215 glutaminase active site [active] 1112250002216 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 1112250002217 dimer interface [polypeptide binding]; other site 1112250002218 active site 1112250002219 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 1112250002220 dimer interface [polypeptide binding]; other site 1112250002221 active site 1112250002222 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 1112250002223 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 1112250002224 active site 1112250002225 substrate binding site [chemical binding]; other site 1112250002226 metal binding site [ion binding]; metal-binding site 1112250002227 poly(A) polymerase; Region: pcnB; TIGR01942 1112250002228 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1112250002229 active site 1112250002230 NTP binding site [chemical binding]; other site 1112250002231 metal binding triad [ion binding]; metal-binding site 1112250002232 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1112250002233 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 1112250002234 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; pfam07578 1112250002235 Predicted membrane protein [Function unknown]; Region: COG3952 1112250002236 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1112250002237 IncA protein; Region: IncA; pfam04156 1112250002238 IncA protein; Region: IncA; pfam04156 1112250002239 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1112250002240 IncA protein; Region: IncA; pfam04156 1112250002241 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1112250002242 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1112250002243 IncA protein; Region: IncA; pfam04156 1112250002244 IncA protein; Region: IncA; pfam04156 1112250002245 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 1112250002246 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 1112250002247 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 1112250002248 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 1112250002249 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 1112250002250 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 1112250002251 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 1112250002252 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 1112250002253 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112250002254 putative glycerol-3-phosphate acyltransferase PlsX; Provisional; Region: PRK13846 1112250002255 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1112250002256 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1112250002257 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 1112250002258 homodimer interface [polypeptide binding]; other site 1112250002259 oligonucleotide binding site [chemical binding]; other site 1112250002260 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT; Region: LPLAT_GPAT; cd07985 1112250002261 putative G3P-binding pocket; other site 1112250002262 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1112250002263 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1112250002264 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1112250002265 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1112250002266 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1112250002267 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 1112250002268 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1112250002269 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1112250002270 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1112250002271 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1112250002272 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1112250002273 Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Region: RpsF; COG0360 1112250002274 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 1112250002275 putative active site [active] 1112250002276 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1112250002277 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1112250002278 5S rRNA interface [nucleotide binding]; other site 1112250002279 CTC domain interface [polypeptide binding]; other site 1112250002280 L16 interface [polypeptide binding]; other site 1112250002281 glycogen synthase; Provisional; Region: glgA; PRK00654 1112250002282 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 1112250002283 ADP-binding pocket [chemical binding]; other site 1112250002284 homodimer interface [polypeptide binding]; other site 1112250002285 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1112250002286 glycyl-tRNA synthetase; Provisional; Region: PRK14908 1112250002287 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 1112250002288 dimer interface [polypeptide binding]; other site 1112250002289 motif 1; other site 1112250002290 active site 1112250002291 motif 2; other site 1112250002292 motif 3; other site 1112250002293 DNA primase; Validated; Region: dnaG; PRK05667 1112250002294 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1112250002295 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1112250002296 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 1112250002297 active site 1112250002298 metal binding site [ion binding]; metal-binding site 1112250002299 interdomain interaction site; other site 1112250002300 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1112250002301 MutS domain I; Region: MutS_I; pfam01624 1112250002302 MutS domain II; Region: MutS_II; pfam05188 1112250002303 MutS domain III; Region: MutS_III; pfam05192 1112250002304 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1112250002305 Walker A/P-loop; other site 1112250002306 ATP binding site [chemical binding]; other site 1112250002307 Q-loop/lid; other site 1112250002308 ABC transporter signature motif; other site 1112250002309 Walker B; other site 1112250002310 D-loop; other site 1112250002311 H-loop/switch region; other site 1112250002312 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1112250002313 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1112250002314 active site 1112250002315 catalytic site [active] 1112250002316 putative DNA binding site [nucleotide binding]; other site 1112250002317 GIY-YIG motif/motif A; other site 1112250002318 metal binding site [ion binding]; metal-binding site 1112250002319 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1112250002320 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1112250002321 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1112250002322 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1112250002323 ribonuclease P; Reviewed; Region: rnpA; PRK00730 1112250002324 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 1112250002325 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1112250002326 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112250002327 active site 1112250002328 HIGH motif; other site 1112250002329 nucleotide binding site [chemical binding]; other site 1112250002330 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1112250002331 KMSKS motif; other site 1112250002332 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1112250002333 tRNA binding surface [nucleotide binding]; other site 1112250002334 anticodon binding site; other site 1112250002335 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1112250002336 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 1112250002337 dimer interface [polypeptide binding]; other site 1112250002338 putative anticodon binding site; other site 1112250002339 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1112250002340 motif 1; other site 1112250002341 dimer interface [polypeptide binding]; other site 1112250002342 active site 1112250002343 motif 2; other site 1112250002344 motif 3; other site 1112250002345 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1112250002346 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1112250002347 primosome assembly protein PriA; Validated; Region: PRK05580 1112250002348 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 1112250002349 ATP binding site [chemical binding]; other site 1112250002350 putative Mg++ binding site [ion binding]; other site 1112250002351 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1112250002352 ATP-binding site [chemical binding]; other site 1112250002353 8-amino-7-oxononanoate synthase; Provisional; Region: PRK05937 1112250002354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112250002355 catalytic residue [active] 1112250002356 long chain fatty acid--[acyl-carrier-protein] ligase; Validated; Region: PRK06334 1112250002357 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1112250002358 acyl-activating enzyme (AAE) consensus motif; other site 1112250002359 AMP binding site [chemical binding]; other site 1112250002360 active site 1112250002361 CoA binding site [chemical binding]; other site 1112250002362 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1112250002363 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1112250002364 putative acyl-acceptor binding pocket; other site 1112250002365 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 1112250002366 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112250002367 active site 1112250002368 putative lithium-binding site [ion binding]; other site 1112250002369 substrate binding site [chemical binding]; other site 1112250002370 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1112250002371 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1112250002372 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1112250002373 NAD binding site [chemical binding]; other site 1112250002374 Phe binding site; other site 1112250002375 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 1112250002376 dimer interface [polypeptide binding]; other site 1112250002377 substrate binding site [chemical binding]; other site 1112250002378 metal binding sites [ion binding]; metal-binding site 1112250002379 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 1112250002380 active site 1112250002381 Ap4A binding cleft/pocket [chemical binding]; other site 1112250002382 P4 phosphate binding site; other site 1112250002383 nudix motif; other site 1112250002384 putative P2/P3 phosphate binding site [ion binding]; other site 1112250002385 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 1112250002386 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 1112250002387 dimer interface [polypeptide binding]; other site 1112250002388 active site 1112250002389 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1112250002390 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1112250002391 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1112250002392 hypothetical protein; Provisional; Region: PRK05927 1112250002393 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; cl15377 1112250002394 FeS/SAM binding site; other site 1112250002395 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1112250002396 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1112250002397 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 1112250002398 anti sigma factor interaction site; other site 1112250002399 regulatory phosphorylation site [posttranslational modification]; other site 1112250002400 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1112250002401 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1112250002402 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cd02409 1112250002403 G-X-X-G motif; other site 1112250002404 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 1112250002405 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1112250002406 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112250002407 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112250002408 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1112250002409 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112250002410 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1112250002411 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 1112250002412 homodimer interface [polypeptide binding]; other site 1112250002413 active site 1112250002414 cell division protein FtsW; Region: ftsW; TIGR02614 1112250002415 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1112250002416 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1112250002417 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 1112250002418 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1112250002419 NAD(P) binding site [chemical binding]; other site 1112250002420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112250002421 Walker A/P-loop; other site 1112250002422 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112250002423 ATP binding site [chemical binding]; other site 1112250002424 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112250002425 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1112250002426 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 1112250002427 Mg++ binding site [ion binding]; other site 1112250002428 putative catalytic motif [active] 1112250002429 putative substrate binding site [chemical binding]; other site 1112250002430 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1112250002431 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1112250002432 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112250002433 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112250002434 chaperonin GroL; Region: GroEL; TIGR02348 1112250002435 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 1112250002436 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1112250002437 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1112250002438 active site 1112250002439 metal binding site [ion binding]; metal-binding site 1112250002440 elongation factor P; Validated; Region: PRK00529 1112250002441 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1112250002442 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 1112250002443 RNA binding site [nucleotide binding]; other site 1112250002444 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 1112250002445 RNA binding site [nucleotide binding]; other site 1112250002446 AMP nucleosidase; Provisional; Region: PRK07115 1112250002447 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1112250002448 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 1112250002449 TPP-binding site [chemical binding]; other site 1112250002450 dimer interface [polypeptide binding]; other site 1112250002451 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 1112250002452 PYR/PP interface [polypeptide binding]; other site 1112250002453 dimer interface [polypeptide binding]; other site 1112250002454 TPP binding site [chemical binding]; other site 1112250002455 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112250002456 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1112250002457 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1112250002458 motif 1; other site 1112250002459 active site 1112250002460 motif 2; other site 1112250002461 motif 3; other site 1112250002462 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1112250002463 DHHA1 domain; Region: DHHA1; pfam02272 1112250002464 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1112250002465 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1112250002466 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 1112250002467 ATP binding site [chemical binding]; other site 1112250002468 putative Mg++ binding site [ion binding]; other site 1112250002469 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 1112250002470 nucleotide binding region [chemical binding]; other site 1112250002471 ATP-binding site [chemical binding]; other site 1112250002472 TRCF domain; Region: TRCF; pfam03461 1112250002473 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 1112250002474 substrate binding site [chemical binding]; other site 1112250002475 active site 1112250002476 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1112250002477 HemN C-terminal domain; Region: HemN_C; pfam06969 1112250002478 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1112250002479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1112250002480 Histone H1-like protein Hc1; Region: Hc1; pfam07432 1112250002481 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 1112250002482 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 1112250002483 S-adenosylmethionine binding site [chemical binding]; other site 1112250002484 preprotein translocase, YajC subunit; Region: yajC; TIGR00739 1112250002485 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1112250002486 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 1112250002487 catalytic loop [active] 1112250002488 iron binding site [ion binding]; other site 1112250002489 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1112250002490 FAD binding pocket [chemical binding]; other site 1112250002491 FAD binding motif [chemical binding]; other site 1112250002492 phosphate binding motif [ion binding]; other site 1112250002493 beta-alpha-beta structure motif; other site 1112250002494 NAD binding pocket [chemical binding]; other site 1112250002495 Protein of unknown function (DUF687); Region: DUF687; pfam05095 1112250002496 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1112250002497 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1112250002498 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1112250002499 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1112250002500 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1112250002501 Proteins containing SET domain [General function prediction only]; Region: COG2940 1112250002502 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1112250002503 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1112250002504 substrate binding site [chemical binding]; other site 1112250002505 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1112250002506 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1112250002507 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 1112250002508 homopentamer interface [polypeptide binding]; other site 1112250002509 active site 1112250002510 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1112250002511 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1112250002512 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 1112250002513 dimerization interface [polypeptide binding]; other site 1112250002514 active site 1112250002515 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1112250002516 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 1112250002517 catalytic motif [active] 1112250002518 Zn binding site [ion binding]; other site 1112250002519 RibD C-terminal domain; Region: RibD_C; pfam01872 1112250002520 seryl-tRNA synthetase; Provisional; Region: PRK05431 1112250002521 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1112250002522 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1112250002523 dimer interface [polypeptide binding]; other site 1112250002524 active site 1112250002525 motif 1; other site 1112250002526 motif 2; other site 1112250002527 motif 3; other site 1112250002528 CCC1-related protein family; Region: CCC1_like_1; cd02437 1112250002529 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1112250002530 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1112250002531 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1112250002532 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1112250002533 biotin--protein ligase; Provisional; Region: PRK05935 1112250002534 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1112250002535 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1112250002536 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 1112250002537 RNA binding surface [nucleotide binding]; other site 1112250002538 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1112250002539 active site 1112250002540 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 1112250002541 catalytic core [active] 1112250002542 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 1112250002543 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1112250002544 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112250002545 catalytic residue [active] 1112250002546 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1112250002547 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 1112250002548 NifU-like domain; Region: NifU; cl00484 1112250002549 type III secretion system protein; Validated; Region: PRK05934 1112250002550 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1112250002551 MgtE intracellular N domain; Region: MgtE_N; cl15244 1112250002552 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1112250002553 type III secretion system ATPase; Validated; Region: PRK05922 1112250002554 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1112250002555 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1112250002556 Walker A motif; other site 1112250002557 ATP binding site [chemical binding]; other site 1112250002558 Walker B motif; other site 1112250002559 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 1112250002560 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 1112250002561 substrate binding site; other site 1112250002562 dimerization interface; other site 1112250002563 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1112250002564 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1112250002565 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1112250002566 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 1112250002567 Effector from type III secretion system; Region: Effector_1; pfam04518 1112250002568 Effector from type III secretion system; Region: Effector_1; pfam04518 1112250002569 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 1112250002570 active site 1112250002571 substrate-binding site [chemical binding]; other site 1112250002572 metal-binding site [ion binding] 1112250002573 GTP binding site [chemical binding]; other site 1112250002574 rod shape-determining protein MreB; Provisional; Region: PRK13927 1112250002575 MreB and similar proteins; Region: MreB_like; cd10225 1112250002576 nucleotide binding site [chemical binding]; other site 1112250002577 Mg binding site [ion binding]; other site 1112250002578 putative protofilament interaction site [polypeptide binding]; other site 1112250002579 RodZ interaction site [polypeptide binding]; other site 1112250002580 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1112250002581 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1112250002582 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 1112250002583 ATP binding site [chemical binding]; other site 1112250002584 putative Mg++ binding site [ion binding]; other site 1112250002585 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 1112250002586 nucleotide binding region [chemical binding]; other site 1112250002587 ATP-binding site [chemical binding]; other site 1112250002588 trigger factor; Provisional; Region: tig; PRK01490 1112250002589 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1112250002590 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1112250002591 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1112250002592 oligomer interface [polypeptide binding]; other site 1112250002593 active site residues [active] 1112250002594 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1112250002595 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1112250002596 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 1112250002597 Walker A motif; other site 1112250002598 ATP binding site [chemical binding]; other site 1112250002599 Walker B motif; other site 1112250002600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1112250002601 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1112250002602 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1112250002603 active site 1112250002604 NTP binding site [chemical binding]; other site 1112250002605 metal binding triad [ion binding]; metal-binding site 1112250002606 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1112250002607 GTP-binding protein Der; Reviewed; Region: PRK00093 1112250002608 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1112250002609 G1 box; other site 1112250002610 GTP/Mg2+ binding site [chemical binding]; other site 1112250002611 Switch I region; other site 1112250002612 G2 box; other site 1112250002613 Switch II region; other site 1112250002614 G3 box; other site 1112250002615 G4 box; other site 1112250002616 G5 box; other site 1112250002617 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1112250002618 G1 box; other site 1112250002619 GTP/Mg2+ binding site [chemical binding]; other site 1112250002620 Switch I region; other site 1112250002621 G2 box; other site 1112250002622 G3 box; other site 1112250002623 Switch II region; other site 1112250002624 G4 box; other site 1112250002625 G5 box; other site 1112250002626 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 1112250002627 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1112250002628 ATP binding site [chemical binding]; other site 1112250002629 putative Mg++ binding site [ion binding]; other site 1112250002630 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1112250002631 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 1112250002632 nucleotide binding region [chemical binding]; other site 1112250002633 ATP-binding site [chemical binding]; other site 1112250002634 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1112250002635 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 1112250002636 binding surface 1112250002637 TPR motif; other site 1112250002638 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 1112250002639 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1112250002640 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1112250002641 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1112250002642 G1 box; other site 1112250002643 GTP/Mg2+ binding site [chemical binding]; other site 1112250002644 Switch I region; other site 1112250002645 G2 box; other site 1112250002646 Switch II region; other site 1112250002647 G3 box; other site 1112250002648 G4 box; other site 1112250002649 G5 box; other site 1112250002650 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1112250002651 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1112250002652 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1112250002653 minor groove reading motif; other site 1112250002654 helix-hairpin-helix signature motif; other site 1112250002655 substrate binding pocket [chemical binding]; other site 1112250002656 active site 1112250002657 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1112250002658 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1112250002659 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 1112250002660 ATP binding site [chemical binding]; other site 1112250002661 putative Mg++ binding site [ion binding]; other site 1112250002662 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 1112250002663 nucleotide binding region [chemical binding]; other site 1112250002664 ATP-binding site [chemical binding]; other site 1112250002665 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1112250002666 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1112250002667 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112250002668 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1112250002669 lipoyl synthase; Provisional; Region: PRK05481 1112250002670 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 1112250002671 FeS/SAM binding site; other site 1112250002672 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 1112250002673 type III secretion system protein; Validated; Region: PRK06328 1112250002674 Flagellar assembly protein FliH; Region: FliH; pfam02108 1112250002675 FliP family; Region: FliP; cl00593 1112250002676 type III secretion system protein; Reviewed; Region: PRK09617 1112250002677 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1112250002678 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 1112250002679 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 1112250002680 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1112250002681 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1112250002682 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1112250002683 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1112250002684 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1112250002685 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1112250002686 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1112250002687 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1112250002688 Walker A motif; other site 1112250002689 ATP binding site [chemical binding]; other site 1112250002690 Walker B motif; other site 1112250002691 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1112250002692 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1112250002693 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1112250002694 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1112250002695 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1112250002696 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1112250002697 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1112250002698 active site 1112250002699 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 1112250002700 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 1112250002701 ATP binding site [chemical binding]; other site 1112250002702 Mg2+ binding site [ion binding]; other site 1112250002703 G-X-G motif; other site 1112250002704 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1112250002705 ATP binding site [chemical binding]; other site 1112250002706 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1112250002707 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1112250002708 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 1112250002709 binding surface 1112250002710 TPR motif; other site 1112250002711 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 1112250002712 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 1112250002713 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112250002714 EamA-like transporter family; Region: EamA; pfam00892 1112250002715 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1112250002716 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cd01616 1112250002717 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1112250002718 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 1112250002719 active site 1112250002720 dimer interface [polypeptide binding]; other site 1112250002721 motif 1; other site 1112250002722 motif 2; other site 1112250002723 motif 3; other site 1112250002724 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 1112250002725 anticodon binding site; other site 1112250002726 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1112250002727 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1112250002728 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 1112250002729 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1112250002730 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1112250002731 active site 1112250002732 HIGH motif; other site 1112250002733 dimer interface [polypeptide binding]; other site 1112250002734 KMSKS motif; other site 1112250002735 excinuclease ABC subunit B; Provisional; Region: PRK05298 1112250002736 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 1112250002737 ATP binding site [chemical binding]; other site 1112250002738 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 1112250002739 nucleotide binding region [chemical binding]; other site 1112250002740 ATP-binding site [chemical binding]; other site 1112250002741 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1112250002742 UvrB/uvrC motif; Region: UVR; pfam02151 1112250002743 enolase; Provisional; Region: eno; PRK00077 1112250002744 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 1112250002745 dimer interface [polypeptide binding]; other site 1112250002746 metal binding site [ion binding]; metal-binding site 1112250002747 substrate binding pocket [chemical binding]; other site 1112250002748 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1112250002749 HAMP domain; Region: HAMP; pfam00672 1112250002750 dimerization interface [polypeptide binding]; other site 1112250002751 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1112250002752 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 1112250002753 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1112250002754 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 1112250002755 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1112250002756 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 1112250002757 L-aspartate oxidase; Provisional; Region: PRK06175 1112250002758 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1112250002759 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 1112250002760 putative Iron-sulfur protein interface [polypeptide binding]; other site 1112250002761 proximal heme binding site [chemical binding]; other site 1112250002762 distal heme binding site [chemical binding]; other site 1112250002763 putative dimer interface [polypeptide binding]; other site 1112250002764 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1112250002765 active site 1112250002766 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1112250002767 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1112250002768 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1112250002769 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1112250002770 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1112250002771 DsbD alpha interface [polypeptide binding]; other site 1112250002772 catalytic residues [active] 1112250002773 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1112250002774 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1112250002775 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1112250002776 translocation protein TolB; Provisional; Region: tolB; PRK01029 1112250002777 TolB amino-terminal domain; Region: TolB_N; pfam04052 1112250002778 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1112250002779 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1112250002780 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1112250002781 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1112250002782 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1112250002783 ligand binding site [chemical binding]; other site 1112250002784 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1112250002785 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1112250002786 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1112250002787 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 1112250002788 dimer interface [polypeptide binding]; other site 1112250002789 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1112250002790 catalytic triad [active] 1112250002791 peroxidatic and resolving cysteines [active] 1112250002792 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1112250002793 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 1112250002794 ring oligomerisation interface [polypeptide binding]; other site 1112250002795 ATP/Mg binding site [chemical binding]; other site 1112250002796 stacking interactions; other site 1112250002797 hinge regions; other site 1112250002798 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 1112250002799 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 1112250002800 active site 1112250002801 dimerization interface [polypeptide binding]; other site 1112250002802 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1112250002803 ligand binding site [chemical binding]; other site 1112250002804 active site 1112250002805 UGI interface [polypeptide binding]; other site 1112250002806 catalytic site [active] 1112250002807 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1112250002808 Part of AAA domain; Region: AAA_19; pfam13245 1112250002809 Family description; Region: UvrD_C_2; pfam13538 1112250002810 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1112250002811 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 1112250002812 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1112250002813 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1112250002814 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 1112250002815 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 1112250002816 active site 1112250002817 interdomain interaction site; other site 1112250002818 putative metal-binding site [ion binding]; other site 1112250002819 nucleotide binding site [chemical binding]; other site 1112250002820 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 1112250002821 domain I; other site 1112250002822 DNA binding groove [nucleotide binding] 1112250002823 phosphate binding site [ion binding]; other site 1112250002824 domain II; other site 1112250002825 domain III; other site 1112250002826 nucleotide binding site [chemical binding]; other site 1112250002827 catalytic site [active] 1112250002828 domain IV; other site 1112250002829 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1112250002830 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1112250002831 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1112250002832 SWIB/MDM2 domain; Region: SWIB; pfam02201 1112250002833 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1112250002834 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 1112250002835 FMN binding site [chemical binding]; other site 1112250002836 active site 1112250002837 catalytic residues [active] 1112250002838 substrate binding site [chemical binding]; other site 1112250002839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1112250002840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1112250002841 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1112250002842 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1112250002843 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 1112250002844 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1112250002845 hexamer interface [polypeptide binding]; other site 1112250002846 Walker A motif; other site 1112250002847 ATP binding site [chemical binding]; other site 1112250002848 Walker B motif; other site 1112250002849 putative folate metabolism protein, CADD family; Region: fol_rel_CADD; TIGR04305 1112250002850 putative folate metabolism gamma-glutamate ligase; Region: intra_fol_E_lig; TIGR04132 1112250002851 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 1112250002852 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1112250002853 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1112250002854 folate binding site [chemical binding]; other site 1112250002855 NADP+ binding site [chemical binding]; other site 1112250002856 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 1112250002857 catalytic center binding site [active] 1112250002858 ATP binding site [chemical binding]; other site 1112250002859 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 1112250002860 dihydropteroate synthase; Region: DHPS; TIGR01496 1112250002861 substrate binding pocket [chemical binding]; other site 1112250002862 dimer interface [polypeptide binding]; other site 1112250002863 inhibitor binding site; inhibition site 1112250002864 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 1112250002865 active site 1112250002866 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1112250002867 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1112250002868 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1112250002869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112250002870 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1112250002871 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 1112250002872 DNA binding residues [nucleotide binding] 1112250002873 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 1112250002874 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1112250002875 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1112250002876 AAA domain; Region: AAA_30; pfam13604 1112250002877 Family description; Region: UvrD_C_2; pfam13538 1112250002878 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 1112250002879 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112250002880 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 1112250002881 DNA binding site [nucleotide binding] 1112250002882 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1112250002883 putative trimer interface [polypeptide binding]; other site 1112250002884 putative CoA binding site [chemical binding]; other site 1112250002885 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1112250002886 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1112250002887 substrate binding pocket [chemical binding]; other site 1112250002888 chain length determination region; other site 1112250002889 catalytic residues [active] 1112250002890 aspartate-rich region 1; other site 1112250002891 substrate-Mg2+ binding site; other site 1112250002892 active site lid residues [active] 1112250002893 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 1112250002894 Thymidylate synthase complementing protein; Region: Thy1; cl03630