-- dump date 20120504_141649 -- class Genbank::misc_feature -- table misc_feature_note -- id note 331636000001 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 331636000002 dimer interface [polypeptide binding]; other site 331636000003 active site 331636000004 aspartate-rich active site metal binding site; other site 331636000005 allosteric magnesium binding site [ion binding]; other site 331636000006 Schiff base residues; other site 331636000007 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 331636000008 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 331636000009 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 331636000010 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 331636000011 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 331636000012 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 331636000013 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 331636000014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636000015 homodimer interface [polypeptide binding]; other site 331636000016 catalytic residue [active] 331636000017 rod shape-determining protein MreC; Provisional; Region: PRK14872 331636000018 rod shape-determining protein MreC; Region: MreC; pfam04085 331636000019 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 331636000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636000021 Family description; Region: UvrD_C_2; cl15862 331636000022 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 331636000023 H+ Antiporter protein; Region: 2A0121; TIGR00900 331636000024 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 331636000025 putative substrate translocation pore; other site 331636000026 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 331636000027 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 331636000028 active site residue [active] 331636000029 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 331636000030 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 331636000031 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 331636000032 RNA binding surface [nucleotide binding]; other site 331636000033 endonuclease IV; Provisional; Region: PRK01060 331636000034 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 331636000035 AP (apurinic/apyrimidinic) site pocket; other site 331636000036 DNA interaction; other site 331636000037 Metal-binding active site; metal-binding site 331636000038 MviN-like protein; Region: MVIN; pfam03023 331636000039 Effector from type III secretion system; Region: Effector_1; pfam04518 331636000040 Effector from type III secretion system; Region: Effector_1; pfam04518 331636000041 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 331636000042 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 331636000043 Walker A/P-loop; other site 331636000044 ATP binding site [chemical binding]; other site 331636000045 Q-loop/lid; other site 331636000046 ABC transporter signature motif; other site 331636000047 Walker B; other site 331636000048 D-loop; other site 331636000049 H-loop/switch region; other site 331636000050 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 331636000051 NeuB family; Region: NeuB; cl00496 331636000052 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331636000053 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; cl00098 331636000054 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 331636000055 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331636000056 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 331636000057 RNA binding surface [nucleotide binding]; other site 331636000058 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331636000059 active site 331636000060 DNA Topoisomerase IV; Region: TOP4c; smart00434 331636000061 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 331636000062 CAP-like domain; other site 331636000063 active site 331636000064 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 331636000065 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 331636000066 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 331636000067 ATP binding site [chemical binding]; other site 331636000068 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 331636000069 active site 331636000070 putative metal-binding site [ion binding]; other site 331636000071 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331636000072 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 331636000073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000074 NAD(P) binding pocket [chemical binding]; other site 331636000075 Tir chaperone protein (CesT) family; Region: CesT; cl08444 331636000076 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 331636000077 phosphopeptide binding site; other site 331636000078 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 331636000079 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 331636000080 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 331636000081 phosphopeptide binding site; other site 331636000082 BON domain; Region: BON; cl02771 331636000083 type III secretion system ATPase; Provisional; Region: PRK06315 331636000084 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 331636000085 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 331636000086 Walker A motif/ATP binding site; other site 331636000087 Walker B motif; other site 331636000088 type III secretion system protein; Validated; Region: PRK05933 331636000089 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 331636000090 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 331636000091 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331636000092 active site 331636000093 ATP binding site [chemical binding]; other site 331636000094 substrate binding site [chemical binding]; other site 331636000095 activation loop (A-loop); other site 331636000096 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 331636000097 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636000098 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636000099 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331636000100 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 331636000101 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 331636000102 ADP binding site [chemical binding]; other site 331636000103 phosphagen binding site; other site 331636000104 substrate specificity loop; other site 331636000105 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 331636000106 UvrB/uvrC motif; Region: UVR; pfam02151 331636000107 ribosome recycling factor; Reviewed; Region: frr; PRK00083 331636000108 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 331636000109 hinge region; other site 331636000110 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 331636000111 putative nucleotide binding site [chemical binding]; other site 331636000112 uridine monophosphate binding site [chemical binding]; other site 331636000113 homohexameric interface [polypeptide binding]; other site 331636000114 elongation factor Ts; Provisional; Region: tsf; PRK09377 331636000115 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 331636000116 Elongation factor TS; Region: EF_TS; pfam00889 331636000117 Elongation factor TS; Region: EF_TS; pfam00889 331636000118 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 331636000119 rRNA interaction site [nucleotide binding]; other site 331636000120 S8 interaction site; other site 331636000121 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 331636000122 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331636000123 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 331636000124 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 331636000125 Tetratricopeptide repeat; Region: TPR_12; pfam13424 331636000126 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 331636000127 binding surface 331636000128 TPR motif; other site 331636000129 TPR repeat; Region: TPR_11; pfam13414 331636000130 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 331636000131 binding surface 331636000132 TPR motif; other site 331636000133 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 331636000134 binding surface 331636000135 TPR repeat; Region: TPR_11; pfam13414 331636000136 TPR motif; other site 331636000137 Tetratricopeptide repeat; Region: TPR_16; pfam13432 331636000138 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 331636000139 binding surface 331636000140 TPR motif; other site 331636000141 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 331636000142 putative ABC transporter; Region: ycf24; CHL00085 331636000143 FeS assembly ATPase SufC; Region: sufC; TIGR01978 331636000144 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 331636000145 Walker A/P-loop; other site 331636000146 ATP binding site [chemical binding]; other site 331636000147 Q-loop/lid; other site 331636000148 ABC transporter signature motif; other site 331636000149 Walker B; other site 331636000150 D-loop; other site 331636000151 H-loop/switch region; other site 331636000152 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 331636000153 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 331636000154 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331636000155 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 331636000156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636000157 catalytic residue [active] 331636000158 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 331636000159 putative active site [active] 331636000160 putative metal binding site [ion binding]; other site 331636000161 ParB-like partition proteins; Region: parB_part; TIGR00180 331636000162 ParB-like nuclease domain; Region: ParBc; cl02129 331636000163 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 331636000164 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 331636000165 Walker A/P-loop; other site 331636000166 ATP binding site [chemical binding]; other site 331636000167 Q-loop/lid; other site 331636000168 ABC transporter signature motif; other site 331636000169 Walker B; other site 331636000170 D-loop; other site 331636000171 H-loop/switch region; other site 331636000172 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636000173 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 331636000174 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 331636000175 Walker A/P-loop; other site 331636000176 ATP binding site [chemical binding]; other site 331636000177 Q-loop/lid; other site 331636000178 ABC transporter signature motif; other site 331636000179 Walker B; other site 331636000180 D-loop; other site 331636000181 H-loop/switch region; other site 331636000182 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636000183 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 331636000184 Phosphate transporter family; Region: PHO4; cl00396 331636000185 Phosphate transporter family; Region: PHO4; cl00396 331636000186 Phosphoglycerate kinase; Region: PGK; pfam00162 331636000187 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 331636000188 substrate binding site [chemical binding]; other site 331636000189 hinge regions; other site 331636000190 ADP binding site [chemical binding]; other site 331636000191 catalytic site [active] 331636000192 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 331636000193 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 331636000194 S-adenosylmethionine binding site [chemical binding]; other site 331636000195 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 331636000196 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 331636000197 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 331636000198 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 331636000199 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 331636000200 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 331636000201 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 331636000202 generic binding surface I; other site 331636000203 generic binding surface II; other site 331636000204 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 331636000205 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 331636000206 putative substrate translocation pore; other site 331636000207 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 331636000208 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 331636000209 dimer interface [polypeptide binding]; other site 331636000210 motif 1; other site 331636000211 active site 331636000212 motif 2; other site 331636000213 motif 3; other site 331636000214 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 331636000215 anticodon binding site; other site 331636000216 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 331636000217 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 331636000218 dimer interface [polypeptide binding]; other site 331636000219 anticodon binding site; other site 331636000220 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 331636000221 homodimer interface [polypeptide binding]; other site 331636000222 motif 1; other site 331636000223 active site 331636000224 motif 2; other site 331636000225 GAD domain; Region: GAD; pfam02938 331636000226 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 331636000227 active site 331636000228 motif 3; other site 331636000229 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 331636000230 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 331636000231 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 331636000232 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 331636000233 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 331636000234 catalytic residues [active] 331636000235 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 331636000236 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 331636000237 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 331636000238 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331636000239 active site 331636000240 catalytic site [active] 331636000241 substrate binding site [chemical binding]; other site 331636000242 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 331636000243 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 331636000244 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 331636000245 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 331636000246 putative active site [active] 331636000247 catalytic triad [active] 331636000248 putative dimer interface [polypeptide binding]; other site 331636000249 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 331636000250 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 331636000251 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 331636000252 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 331636000253 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 331636000254 active site 331636000255 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 331636000256 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 331636000257 putative active site [active] 331636000258 substrate binding site [chemical binding]; other site 331636000259 putative cosubstrate binding site; other site 331636000260 catalytic site [active] 331636000261 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 331636000262 substrate binding site [chemical binding]; other site 331636000263 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 331636000264 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 331636000265 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 331636000266 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 331636000267 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 331636000268 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 331636000269 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 331636000270 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 331636000271 putative translocon binding site; other site 331636000272 protein-rRNA interface [nucleotide binding]; other site 331636000273 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 331636000274 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 331636000275 G-X-X-G motif; other site 331636000276 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 331636000277 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 331636000278 23S rRNA interface [nucleotide binding]; other site 331636000279 5S rRNA interface [nucleotide binding]; other site 331636000280 putative antibiotic binding site [chemical binding]; other site 331636000281 L25 interface [polypeptide binding]; other site 331636000282 L27 interface [polypeptide binding]; other site 331636000283 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 331636000284 23S rRNA interface [nucleotide binding]; other site 331636000285 putative translocon interaction site; other site 331636000286 signal recognition particle (SRP54) interaction site; other site 331636000287 L23 interface [polypeptide binding]; other site 331636000288 trigger factor interaction site; other site 331636000289 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 331636000290 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 331636000291 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 331636000292 KOW motif; Region: KOW; cl00354 331636000293 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 331636000294 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 331636000295 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 331636000296 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 331636000297 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 331636000298 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331636000299 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331636000300 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 331636000301 5S rRNA interface [nucleotide binding]; other site 331636000302 L27 interface [polypeptide binding]; other site 331636000303 23S rRNA interface [nucleotide binding]; other site 331636000304 L5 interface [polypeptide binding]; other site 331636000305 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 331636000306 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 331636000307 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 331636000308 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 331636000309 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 331636000310 SecY translocase; Region: SecY; pfam00344 331636000311 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 331636000312 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 331636000313 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 331636000314 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 331636000315 alphaNTD - beta interaction site [polypeptide binding]; other site 331636000316 alphaNTD homodimer interface [polypeptide binding]; other site 331636000317 alphaNTD - beta' interaction site [polypeptide binding]; other site 331636000318 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 331636000319 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 331636000320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000321 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 331636000322 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 331636000323 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 331636000324 active site 331636000325 putative DNA-binding cleft [nucleotide binding]; other site 331636000326 dimer interface [polypeptide binding]; other site 331636000327 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 331636000328 RuvA N terminal domain; Region: RuvA_N; pfam01330 331636000329 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 331636000330 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 331636000331 active site 331636000332 multimer interface [polypeptide binding]; other site 331636000333 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 331636000334 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331636000335 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 331636000336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000338 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 331636000339 replicative DNA helicase; Provisional; Region: PRK06321 331636000340 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331636000341 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 331636000342 Walker A motif; other site 331636000343 ATP binding site [chemical binding]; other site 331636000344 Walker B motif; other site 331636000345 DNA binding loops [nucleotide binding] 331636000346 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636000347 TLC ATP/ADP transporter; Region: TLC; pfam03219 331636000348 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 331636000349 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 331636000350 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 331636000351 tandem repeat interface [polypeptide binding]; other site 331636000352 oligomer interface [polypeptide binding]; other site 331636000353 active site residues [active] 331636000354 DNA polymerase I; Provisional; Region: PRK05755 331636000355 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 331636000356 active site 331636000357 metal binding site 1 [ion binding]; metal-binding site 331636000358 putative 5' ssDNA interaction site; other site 331636000359 metal binding site 3; metal-binding site 331636000360 metal binding site 2 [ion binding]; metal-binding site 331636000361 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 331636000362 putative DNA binding site [nucleotide binding]; other site 331636000363 putative metal binding site [ion binding]; other site 331636000364 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the...; Region: 35EXOc; cd00007 331636000365 active site 331636000366 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 331636000367 active site 331636000368 DNA binding site [nucleotide binding] 331636000369 catalytic site [active] 331636000370 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 331636000371 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 331636000372 CoA-binding site [chemical binding]; other site 331636000373 ATP-binding [chemical binding]; other site 331636000374 transcription termination factor Rho; Provisional; Region: rho; PRK09376 331636000375 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 331636000376 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 331636000377 RNA binding site [nucleotide binding]; other site 331636000378 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 331636000379 multimer interface [polypeptide binding]; other site 331636000380 Walker A motif; other site 331636000381 ATP binding site [chemical binding]; other site 331636000382 Walker B motif; other site 331636000383 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331636000384 active site 331636000385 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 331636000386 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 331636000387 ligand binding site; other site 331636000388 oligomer interface; other site 331636000389 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 331636000390 dimer interface [polypeptide binding]; other site 331636000391 N-terminal domain interface [polypeptide binding]; other site 331636000392 sulfate 1 binding site; other site 331636000393 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 331636000394 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331636000395 putative active site [active] 331636000396 putative metal binding site [ion binding]; other site 331636000397 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; cl16911 331636000398 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 331636000399 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 331636000400 substrate binding pocket [chemical binding]; other site 331636000401 membrane-bound complex binding site; other site 331636000402 hinge residues; other site 331636000403 ferrochelatase; Reviewed; Region: hemH; PRK00035 331636000404 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 331636000405 C-terminal domain interface [polypeptide binding]; other site 331636000406 active site 331636000407 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 331636000408 active site 331636000409 N-terminal domain interface [polypeptide binding]; other site 331636000410 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 331636000411 TPR motif; other site 331636000412 binding surface 331636000413 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 331636000414 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 331636000415 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331636000416 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 331636000417 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 331636000418 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 331636000419 dimer interface [polypeptide binding]; other site 331636000420 conserved gate region; other site 331636000421 putative PBP binding loops; other site 331636000422 ABC-ATPase subunit interface; other site 331636000423 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 331636000424 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 331636000425 DNA binding site [nucleotide binding] 331636000426 active site 331636000427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331636000428 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 331636000429 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 331636000430 putative tRNA-binding site [nucleotide binding]; other site 331636000431 B3/4 domain; Region: B3_4; cl11458 331636000432 tRNA synthetase B5 domain; Region: B5; cl08394 331636000433 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 331636000434 dimer interface [polypeptide binding]; other site 331636000435 motif 1; other site 331636000436 motif 3; other site 331636000437 motif 2; other site 331636000438 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 331636000439 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636000440 Haemolytic domain; Region: Haemolytic; cl00506 331636000441 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 331636000442 Recombination protein O N terminal; Region: RecO_N; cl15812 331636000443 DNA repair protein RecO; Region: reco; TIGR00613 331636000444 Recombination protein O C terminal; Region: RecO_C; pfam02565 331636000445 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 331636000446 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 331636000447 Response regulator receiver domain; Region: Response_reg; pfam00072 331636000448 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 331636000449 active site 331636000450 phosphorylation site [posttranslational modification] 331636000451 intermolecular recognition site; other site 331636000452 dimerization interface [polypeptide binding]; other site 331636000453 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 331636000454 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 331636000455 Walker A motif; other site 331636000456 ATP binding site [chemical binding]; other site 331636000457 Walker B motif; other site 331636000458 arginine finger; other site 331636000459 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636000460 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636000461 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 331636000462 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 331636000463 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 331636000464 dimer interface [polypeptide binding]; other site 331636000465 phosphorylation site [posttranslational modification] 331636000466 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 331636000467 ATP binding site [chemical binding]; other site 331636000468 Mg2+ binding site [ion binding]; other site 331636000469 G-X-G motif; other site 331636000470 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 331636000471 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 331636000472 motif II; other site 331636000473 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 331636000474 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 331636000475 dimerization interface 3.5A [polypeptide binding]; other site 331636000476 active site 331636000477 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 331636000478 substrate binding site; other site 331636000479 dimer interface; other site 331636000480 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 331636000481 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 331636000482 putative active site [active] 331636000483 putative metal binding site [ion binding]; other site 331636000484 SWIB/MDM2 domain; Region: SWIB; cl02489 331636000485 RF-1 domain; Region: RF-1; cl02875 331636000486 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 331636000487 RF-1 domain; Region: RF-1; cl02875 331636000488 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 331636000489 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 331636000490 SprT-like family; Region: SprT-like; pfam10263 331636000491 Transcriptional regulator; Region: Transcrip_reg; cl00361 331636000492 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331636000493 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331636000494 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331636000495 I/LWEQ domain; Region: ILWEQ; smart00307 331636000496 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 331636000497 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 331636000498 hinge; other site 331636000499 active site 331636000500 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 331636000501 arginine-tRNA ligase; Region: PLN02286 331636000502 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 331636000503 active site 331636000504 HIGH motif; other site 331636000505 KMSK motif region; other site 331636000506 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331636000507 tRNA binding surface [nucleotide binding]; other site 331636000508 anticodon binding site; other site 331636000509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331636000510 putative acyl-acceptor binding pocket; other site 331636000511 cytidylate kinase; Provisional; Region: cmk; PRK00023 331636000512 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 331636000513 CMP-binding site; other site 331636000514 The sites determining sugar specificity; other site 331636000515 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 331636000516 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 331636000517 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 331636000518 catalytic residue [active] 331636000519 putative FPP diphosphate binding site; other site 331636000520 putative FPP binding hydrophobic cleft; other site 331636000521 dimer interface [polypeptide binding]; other site 331636000522 putative IPP diphosphate binding site; other site 331636000523 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 331636000524 Protein export membrane protein; Region: SecD_SecF; cl14618 331636000525 Protein export membrane protein; Region: SecD_SecF; cl14618 331636000526 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 331636000527 DHH family; Region: DHH; pfam01368 331636000528 DHHA1 domain; Region: DHHA1; pfam02272 331636000529 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 331636000530 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 331636000531 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 331636000532 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 331636000533 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331636000534 HIGH motif; other site 331636000535 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331636000536 active site 331636000537 KMSKS motif; other site 331636000538 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 331636000539 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 331636000540 Fibronectin type III-like domain; Region: Fn3-like; cl15273 331636000541 Fibronectin type III-like domain; Region: Fn3-like; cl15273 331636000542 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 331636000543 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 331636000544 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 331636000545 protein binding site [polypeptide binding]; other site 331636000546 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 331636000547 Catalytic dyad [active] 331636000548 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 331636000549 ATP binding site [chemical binding]; other site 331636000550 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 331636000551 S17 interaction site [polypeptide binding]; other site 331636000552 S8 interaction site; other site 331636000553 16S rRNA interaction site [nucleotide binding]; other site 331636000554 streptomycin interaction site [chemical binding]; other site 331636000555 23S rRNA interaction site [nucleotide binding]; other site 331636000556 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 331636000557 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 331636000558 elongation factor G; Reviewed; Region: PRK12739 331636000559 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 331636000560 G1 box; other site 331636000561 putative GEF interaction site [polypeptide binding]; other site 331636000562 GTP/Mg2+ binding site [chemical binding]; other site 331636000563 Switch I region; other site 331636000564 G2 box; other site 331636000565 G3 box; other site 331636000566 Switch II region; other site 331636000567 G4 box; other site 331636000568 G5 box; other site 331636000569 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 331636000570 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 331636000571 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 331636000572 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 331636000573 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 331636000574 FAD binding pocket [chemical binding]; other site 331636000575 conserved FAD binding motif [chemical binding]; other site 331636000576 phosphate binding motif [ion binding]; other site 331636000577 beta-alpha-beta structure motif; other site 331636000578 NAD binding pocket [chemical binding]; other site 331636000579 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 331636000580 homotrimer interaction site [polypeptide binding]; other site 331636000581 zinc binding site [ion binding]; other site 331636000582 CDP-binding sites; other site 331636000583 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 331636000584 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 331636000585 GTPase CgtA; Reviewed; Region: obgE; PRK12299 331636000586 GTP1/OBG; Region: GTP1_OBG; pfam01018 331636000587 Obg GTPase; Region: Obg; cd01898 331636000588 G1 box; other site 331636000589 GTP/Mg2+ binding site [chemical binding]; other site 331636000590 Switch I region; other site 331636000591 G2 box; other site 331636000592 G3 box; other site 331636000593 Switch II region; other site 331636000594 G4 box; other site 331636000595 G5 box; other site 331636000596 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 331636000597 dimer interface [polypeptide binding]; other site 331636000598 putative PBP binding regions; other site 331636000599 ABC-ATPase subunit interface; other site 331636000600 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 331636000601 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 331636000602 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 331636000603 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 331636000604 putative metal binding residues [ion binding]; other site 331636000605 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 331636000606 thiamine phosphate binding site [chemical binding]; other site 331636000607 active site 331636000608 pyrophosphate binding site [ion binding]; other site 331636000609 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 331636000610 substrate binding site [chemical binding]; other site 331636000611 multimerization interface [polypeptide binding]; other site 331636000612 ATP binding site [chemical binding]; other site 331636000613 adhesin; Provisional; Region: PRK09752 331636000614 adhesin; Provisional; Region: PRK09752 331636000615 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000616 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000617 adhesin; Provisional; Region: PRK09752 331636000618 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000619 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000620 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000621 YtxH-like protein; Region: YtxH; cl02079 331636000622 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 331636000623 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331636000624 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 331636000625 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 331636000626 lipoprotein signal peptidase; Provisional; Region: PRK14787 331636000627 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 331636000628 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 331636000629 ATP cone domain; Region: ATP-cone; pfam03477 331636000630 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 331636000631 Lumazine binding domain; Region: Lum_binding; pfam00677 331636000632 Lumazine binding domain; Region: Lum_binding; pfam00677 331636000633 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 331636000634 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 331636000635 S-adenosylmethionine binding site [chemical binding]; other site 331636000636 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 331636000637 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 331636000638 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 331636000639 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 331636000640 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 331636000641 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331636000642 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 331636000643 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 331636000644 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 331636000645 E3 interaction surface; other site 331636000646 lipoyl attachment site [posttranslational modification]; other site 331636000647 e3 binding domain; Region: E3_binding; pfam02817 331636000648 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 331636000649 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 331636000650 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 331636000651 putative active site [active] 331636000652 FOG: CBS domain [General function prediction only]; Region: COG0517 331636000653 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 331636000654 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 331636000655 Putative zinc ribbon domain; Region: DUF164; pfam02591 331636000656 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 331636000657 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 331636000658 active site 331636000659 serine hydroxymethyltransferase; Provisional; Region: PRK13580 331636000660 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 331636000661 dimer interface [polypeptide binding]; other site 331636000662 active site 331636000663 glycine-pyridoxal phosphate binding site [chemical binding]; other site 331636000664 folate binding site [chemical binding]; other site 331636000665 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 331636000666 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331636000667 oligomer interface [polypeptide binding]; other site 331636000668 active site residues [active] 331636000669 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 331636000670 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331636000671 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331636000672 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 331636000673 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 331636000674 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 331636000675 S-adenosylmethionine binding site [chemical binding]; other site 331636000676 NMT1-like family; Region: NMT1_2; cl15260 331636000677 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 331636000678 hypothetical protein; Provisional; Region: PRK05926 331636000679 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 331636000680 FeS/SAM binding site; other site 331636000681 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 331636000682 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 331636000683 anti sigma factor interaction site; other site 331636000684 regulatory phosphorylation site [posttranslational modification]; other site 331636000685 FOG: CBS domain [General function prediction only]; Region: COG0517 331636000686 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 331636000687 Transporter associated domain; Region: CorC_HlyC; cl08393 331636000688 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 331636000689 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 331636000690 Protein of unknown function (DUF502); Region: DUF502; cl01107 331636000691 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 331636000692 active site 331636000693 DNA binding site [nucleotide binding] 331636000694 Exoribonuclease R [Transcription]; Region: VacB; COG0557 331636000695 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 331636000696 RNB domain; Region: RNB; pfam00773 331636000697 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 331636000698 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 331636000699 heat shock protein GrpE; Provisional; Region: PRK14141 331636000700 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 331636000701 dimer interface [polypeptide binding]; other site 331636000702 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 331636000703 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 331636000704 prolyl-tRNA synthetase; Provisional; Region: PRK09194 331636000705 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 331636000706 dimer interface [polypeptide binding]; other site 331636000707 motif 1; other site 331636000708 active site 331636000709 motif 2; other site 331636000710 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 331636000711 putative deacylase active site [active] 331636000712 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 331636000713 active site 331636000714 motif 3; other site 331636000715 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 331636000716 anticodon binding site; other site 331636000717 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 331636000718 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 331636000719 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 331636000720 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 331636000721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636000722 homodimer interface [polypeptide binding]; other site 331636000723 catalytic residue [active] 331636000724 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 331636000725 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 331636000726 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 331636000727 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 331636000728 nucleotide binding site/active site [active] 331636000729 HEAT repeats; Region: HEAT_2; pfam13646 331636000730 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 331636000731 Na binding site [ion binding]; other site 331636000732 NeuB family; Region: NeuB; cl00496 331636000733 OTU-like cysteine protease; Region: OTU; cl14910 331636000734 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 331636000735 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 331636000736 substrate binding pocket [chemical binding]; other site 331636000737 membrane-bound complex binding site; other site 331636000738 hinge residues; other site 331636000739 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 331636000740 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 331636000741 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 331636000742 HflX GTPase family; Region: HflX; cd01878 331636000743 G1 box; other site 331636000744 GTP/Mg2+ binding site [chemical binding]; other site 331636000745 Switch I region; other site 331636000746 G2 box; other site 331636000747 G3 box; other site 331636000748 Switch II region; other site 331636000749 G4 box; other site 331636000750 G5 box; other site 331636000751 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331636000752 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 331636000753 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 331636000754 FeS/SAM binding site; other site 331636000755 glycogen branching enzyme; Provisional; Region: PRK05402 331636000756 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 331636000757 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 331636000758 active site 331636000759 catalytic site [active] 331636000760 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 331636000761 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000762 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000763 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000764 adhesin; Provisional; Region: PRK09752 331636000765 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000766 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000767 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000768 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000769 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000770 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000771 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000772 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000773 Chlamydia polymorphic membrane protein (Chlamydia_PMP) repeat; Region: Chlam_PMP; pfam02415 331636000774 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000775 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000776 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000777 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000778 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000779 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000780 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000781 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000782 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000783 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000784 adhesin; Provisional; Region: PRK09752 331636000785 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000786 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000787 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000788 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000789 adhesin; Provisional; Region: PRK09752 331636000790 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000791 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000792 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000793 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000794 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000795 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636000796 Domain of unknown function (DUF378); Region: DUF378; cl00943 331636000797 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 331636000798 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 331636000799 Amidase; Region: Amidase; cl11426 331636000800 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 331636000801 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 331636000802 GatB domain; Region: GatB_Yqey; cl11497 331636000803 ribonuclease HIII; Provisional; Region: PRK00996 331636000804 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 331636000805 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 331636000806 RNA/DNA hybrid binding site [nucleotide binding]; other site 331636000807 active site 331636000808 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 331636000809 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 331636000810 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636000811 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636000812 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636000813 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 331636000814 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 331636000815 catalytic residues [active] 331636000816 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 331636000817 active site 331636000818 zinc binding site [ion binding]; other site 331636000819 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; cl16911 331636000820 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 331636000821 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 331636000822 TPP-binding site; other site 331636000823 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 331636000824 PYR/PP interface [polypeptide binding]; other site 331636000825 dimer interface [polypeptide binding]; other site 331636000826 TPP binding site [chemical binding]; other site 331636000827 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636000828 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 331636000829 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 331636000830 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 331636000831 generic binding surface II; other site 331636000832 generic binding surface I; other site 331636000833 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 331636000834 substrate binding site [chemical binding]; other site 331636000835 dimer interface [polypeptide binding]; other site 331636000836 catalytic triad [active] 331636000837 Preprotein translocase SecG subunit; Region: SecG; cl09123 331636000838 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 331636000839 active site 331636000840 catalytic residues [active] 331636000841 metal binding site [ion binding]; metal-binding site 331636000842 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 331636000843 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 331636000844 Maf-like protein; Region: Maf; pfam02545 331636000845 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 331636000846 active site 331636000847 dimer interface [polypeptide binding]; other site 331636000848 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 331636000849 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 331636000850 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 331636000851 ABC transporter; Region: ABC_tran_2; pfam12848 331636000852 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 331636000853 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 331636000854 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 331636000855 active site 331636000856 Int/Topo IB signature motif; other site 331636000857 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 331636000858 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 331636000859 Found in ATP-dependent protease La (LON); Region: LON; smart00464 331636000860 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 331636000861 Walker A motif; other site 331636000862 ATP binding site [chemical binding]; other site 331636000863 Walker B motif; other site 331636000864 arginine finger; other site 331636000865 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 331636000866 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 331636000867 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 331636000868 chaperone protein DnaJ; Provisional; Region: PRK14284 331636000869 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 331636000870 HSP70 interaction site [polypeptide binding]; other site 331636000871 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 331636000872 Zn binding sites [ion binding]; other site 331636000873 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 331636000874 dimer interface [polypeptide binding]; other site 331636000875 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 331636000876 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 331636000877 tetramer interface [polypeptide binding]; other site 331636000878 TPP-binding site [chemical binding]; other site 331636000879 heterodimer interface [polypeptide binding]; other site 331636000880 phosphorylation loop region [posttranslational modification] 331636000881 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 331636000882 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 331636000883 alpha subunit interface [polypeptide binding]; other site 331636000884 TPP binding site [chemical binding]; other site 331636000885 heterodimer interface [polypeptide binding]; other site 331636000886 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636000887 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 331636000888 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 331636000889 ADP-ribose binding site [chemical binding]; other site 331636000890 Competence protein; Region: Competence; cl00471 331636000891 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 331636000892 dimerization domain swap beta strand [polypeptide binding]; other site 331636000893 regulatory protein interface [polypeptide binding]; other site 331636000894 active site 331636000895 regulatory phosphorylation site [posttranslational modification]; other site 331636000896 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 331636000897 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331636000898 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 331636000899 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 331636000900 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 331636000901 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 331636000902 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 331636000903 Walker A motif; other site 331636000904 ATP binding site [chemical binding]; other site 331636000905 Walker B motif; other site 331636000906 arginine finger; other site 331636000907 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 331636000908 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 331636000909 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331636000910 Zn2+ binding site [ion binding]; other site 331636000911 Mg2+ binding site [ion binding]; other site 331636000912 porphobilinogen deaminase; Provisional; Region: PRK01066 331636000913 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; cl03189 331636000914 domain interfaces; other site 331636000915 active site 331636000916 DNA repair protein RadA; Provisional; Region: PRK11823 331636000917 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 331636000918 Walker A motif/ATP binding site; other site 331636000919 ATP binding site [chemical binding]; other site 331636000920 Walker B motif; other site 331636000921 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 331636000922 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 331636000923 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 331636000924 dimerization interface [polypeptide binding]; other site 331636000925 active site 331636000926 metal binding site [ion binding]; metal-binding site 331636000927 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 331636000928 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 331636000929 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 331636000930 active site 331636000931 substrate binding site [chemical binding]; other site 331636000932 metal binding site [ion binding]; metal-binding site 331636000933 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 331636000934 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 331636000935 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 331636000936 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 331636000937 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 331636000938 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331636000939 trimer interface [polypeptide binding]; other site 331636000940 active site 331636000941 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 331636000942 active site 331636000943 phosphorylation site [posttranslational modification] 331636000944 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 331636000945 DNA binding residues [nucleotide binding] 331636000946 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 331636000947 active site 331636000948 phosphorylation site [posttranslational modification] 331636000949 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 331636000950 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 331636000951 Ligand Binding Site [chemical binding]; other site 331636000952 Clp protease ATP binding subunit; Region: clpC; CHL00095 331636000953 Clp amino terminal domain; Region: Clp_N; pfam02861 331636000954 Clp amino terminal domain; Region: Clp_N; pfam02861 331636000955 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 331636000956 Walker A motif; other site 331636000957 ATP binding site [chemical binding]; other site 331636000958 Walker B motif; other site 331636000959 arginine finger; other site 331636000960 UvrB/uvrC motif; Region: UVR; pfam02151 331636000961 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 331636000962 Walker A motif; other site 331636000963 ATP binding site [chemical binding]; other site 331636000964 Walker B motif; other site 331636000965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 331636000966 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331636000967 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 331636000968 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331636000969 putative active site [active] 331636000970 catalytic site [active] 331636000971 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 331636000972 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 331636000973 lipoyl attachment site [posttranslational modification]; other site 331636000974 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 331636000975 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 331636000976 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 331636000977 FMN-binding domain; Region: FMN_bind; cl01081 331636000978 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 331636000979 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 331636000980 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 331636000981 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331636000982 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 331636000983 Walker A motif; other site 331636000984 ATP binding site [chemical binding]; other site 331636000985 Walker B motif; other site 331636000986 arginine finger; other site 331636000987 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 331636000988 DnaA box-binding interface [nucleotide binding]; other site 331636000989 TPR repeat; Region: TPR_11; pfam13414 331636000990 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 331636000991 binding surface 331636000992 TPR motif; other site 331636000993 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 331636000994 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; cl16911 331636000995 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 331636000996 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331636000997 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 331636000998 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 331636000999 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331636001000 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636001001 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636001002 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 331636001003 active site 331636001004 metal binding site [ion binding]; metal-binding site 331636001005 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 331636001006 IHF - DNA interface [nucleotide binding]; other site 331636001007 IHF dimer interface [polypeptide binding]; other site 331636001008 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 331636001009 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 331636001010 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 331636001011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001012 Walker A/P-loop; other site 331636001013 ATP binding site [chemical binding]; other site 331636001014 Q-loop/lid; other site 331636001015 ABC transporter signature motif; other site 331636001016 Walker B; other site 331636001017 D-loop; other site 331636001018 H-loop/switch region; other site 331636001019 nucleosidase; Provisional; Region: PRK05634 331636001020 NMT1-like family; Region: NMT1_2; cl15260 331636001021 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 331636001022 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331636001023 active site 331636001024 catalytic site [active] 331636001025 substrate binding site [chemical binding]; other site 331636001026 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 331636001027 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 331636001028 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 331636001029 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 331636001030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001031 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 331636001032 NAD(P) binding site [chemical binding]; other site 331636001033 active site 331636001034 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331636001035 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 331636001036 RNA binding surface [nucleotide binding]; other site 331636001037 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331636001038 active site 331636001039 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 331636001040 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331636001041 minor groove reading motif; other site 331636001042 helix-hairpin-helix signature motif; other site 331636001043 substrate binding pocket [chemical binding]; other site 331636001044 active site 331636001045 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 331636001046 DNA binding and oxoG recognition site [nucleotide binding] 331636001047 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 331636001048 homodimer interface [polypeptide binding]; other site 331636001049 metal binding site [ion binding]; metal-binding site 331636001050 CAAX protease self-immunity; Region: Abi; cl00558 331636001051 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 331636001052 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 331636001053 Protein phosphatase 2C; Region: PP2C; pfam00481 331636001054 active site 331636001055 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 331636001056 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 331636001057 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636001058 catalytic residue [active] 331636001059 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331636001060 Domain of unknown function DUF21; Region: DUF21; pfam01595 331636001061 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 331636001062 Transporter associated domain; Region: CorC_HlyC; cl08393 331636001063 Domain of unknown function DUF21; Region: DUF21; pfam01595 331636001064 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331636001065 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 331636001066 Transporter associated domain; Region: CorC_HlyC; cl08393 331636001067 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331636001068 trimer interface [polypeptide binding]; other site 331636001069 active site 331636001070 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 331636001071 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 331636001072 Walker A motif; other site 331636001073 ATP binding site [chemical binding]; other site 331636001074 Walker B motif; other site 331636001075 arginine finger; other site 331636001076 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 331636001077 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 331636001078 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 331636001079 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 331636001080 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 331636001081 active site 331636001082 catalytic site [active] 331636001083 Tir chaperone protein (CesT) family; Region: CesT; cl08444 331636001084 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 331636001085 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 331636001086 dimer interface [polypeptide binding]; other site 331636001087 ssDNA binding site [nucleotide binding]; other site 331636001088 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331636001089 multifunctional aminopeptidase A; Provisional; Region: PRK00913 331636001090 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 331636001091 interface (dimer of trimers) [polypeptide binding]; other site 331636001092 Substrate-binding/catalytic site; other site 331636001093 Zn-binding sites [ion binding]; other site 331636001094 Histone H1-like nucleoprotein HC2; Region: HC2; pfam07382 331636001095 hypothetical protein; Provisional; Region: PRK05907 331636001096 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 331636001097 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 331636001098 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 331636001099 FeS/SAM binding site; other site 331636001100 HemN C-terminal domain; Region: HemN_C; pfam06969 331636001101 Protein of unknown function (DUF342); Region: DUF342; pfam03961 331636001102 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 331636001103 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 331636001104 TPP-binding site [chemical binding]; other site 331636001105 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 331636001106 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 331636001107 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 331636001108 E3 interaction surface; other site 331636001109 lipoyl attachment site [posttranslational modification]; other site 331636001110 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 331636001111 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 331636001112 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 331636001113 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 331636001114 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 331636001115 ADP-ribose binding site [chemical binding]; other site 331636001116 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 331636001117 ADP-ribose binding site [chemical binding]; other site 331636001118 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 331636001119 catalytic loop [active] 331636001120 iron binding site [ion binding]; other site 331636001121 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 331636001122 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 331636001123 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331636001124 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331636001125 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 331636001126 DNA binding residues [nucleotide binding] 331636001127 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 331636001128 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 331636001129 active site 331636001130 HIGH motif; other site 331636001131 dimer interface [polypeptide binding]; other site 331636001132 KMSKS motif; other site 331636001133 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 331636001134 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 331636001135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001136 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 331636001137 GTP-binding protein LepA; Provisional; Region: PRK05433 331636001138 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 331636001139 G1 box; other site 331636001140 putative GEF interaction site [polypeptide binding]; other site 331636001141 GTP/Mg2+ binding site [chemical binding]; other site 331636001142 Switch I region; other site 331636001143 G2 box; other site 331636001144 G3 box; other site 331636001145 Switch II region; other site 331636001146 G4 box; other site 331636001147 G5 box; other site 331636001148 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 331636001149 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 331636001150 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 331636001151 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001152 TLC ATP/ADP transporter; Region: TLC; pfam03219 331636001153 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 331636001154 putative arabinose transporter; Provisional; Region: PRK03545 331636001155 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 331636001156 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 331636001157 intersubunit interface [polypeptide binding]; other site 331636001158 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 331636001159 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 331636001160 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 331636001161 ABC-ATPase subunit interface; other site 331636001162 dimer interface [polypeptide binding]; other site 331636001163 putative PBP binding regions; other site 331636001164 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 331636001165 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 331636001166 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 331636001167 ABC-ATPase subunit interface; other site 331636001168 dimer interface [polypeptide binding]; other site 331636001169 putative PBP binding regions; other site 331636001170 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 331636001171 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 331636001172 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 331636001173 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 331636001174 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 331636001175 RIP metalloprotease RseP; Region: TIGR00054 331636001176 RIP metalloprotease RseP; Region: TIGR00054 331636001177 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 331636001178 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 331636001179 putative substrate binding region [chemical binding]; other site 331636001180 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 331636001181 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 331636001182 recombination protein F; Reviewed; Region: recF; PRK00064 331636001183 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001184 Walker A/P-loop; other site 331636001185 ATP binding site [chemical binding]; other site 331636001186 Q-loop/lid; other site 331636001187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001188 ABC transporter signature motif; other site 331636001189 Walker B; other site 331636001190 D-loop; other site 331636001191 H-loop/switch region; other site 331636001192 DNA polymerase III subunit beta; Validated; Region: PRK05643 331636001193 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 331636001194 putative DNA binding surface [nucleotide binding]; other site 331636001195 dimer interface [polypeptide binding]; other site 331636001196 beta-clamp/clamp loader binding surface; other site 331636001197 beta-clamp/translesion DNA polymerase binding surface; other site 331636001198 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 331636001199 SmpB-tmRNA interface; other site 331636001200 ApbE family; Region: ApbE; cl00643 331636001201 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 331636001202 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 331636001203 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 331636001204 homodimer interface [polypeptide binding]; other site 331636001205 NADP binding site [chemical binding]; other site 331636001206 substrate binding site [chemical binding]; other site 331636001207 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331636001208 PLD-like domain; Region: PLDc_2; pfam13091 331636001209 putative active site [active] 331636001210 catalytic site [active] 331636001211 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331636001212 PLD-like domain; Region: PLDc_2; pfam13091 331636001213 putative active site [active] 331636001214 catalytic site [active] 331636001215 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 331636001216 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 331636001217 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 331636001218 Tir chaperone protein (CesT) family; Region: CesT; cl08444 331636001219 HrpJ-like domain; Region: HrpJ; cl15454 331636001220 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 331636001221 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 331636001222 type III secretion system protein; Validated; Region: PRK06298 331636001223 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 331636001224 GTP-binding protein YchF; Reviewed; Region: PRK09601 331636001225 YchF GTPase; Region: YchF; cd01900 331636001226 G1 box; other site 331636001227 GTP/Mg2+ binding site [chemical binding]; other site 331636001228 Switch I region; other site 331636001229 G2 box; other site 331636001230 Switch II region; other site 331636001231 G3 box; other site 331636001232 G4 box; other site 331636001233 G5 box; other site 331636001234 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 331636001235 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 331636001236 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 331636001237 active site 331636001238 Riboflavin kinase; Region: Flavokinase; cl03312 331636001239 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 331636001240 RNA binding site [nucleotide binding]; other site 331636001241 active site 331636001242 Ribosome-binding factor A; Region: RBFA; cl00542 331636001243 translation initiation factor IF-2; Region: IF-2; TIGR00487 331636001244 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 331636001245 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 331636001246 G1 box; other site 331636001247 putative GEF interaction site [polypeptide binding]; other site 331636001248 GTP/Mg2+ binding site [chemical binding]; other site 331636001249 Switch I region; other site 331636001250 G2 box; other site 331636001251 G3 box; other site 331636001252 Switch II region; other site 331636001253 G4 box; other site 331636001254 G5 box; other site 331636001255 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 331636001256 Translation-initiation factor 2; Region: IF-2; pfam11987 331636001257 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 331636001258 transcription termination factor NusA; Region: NusA; TIGR01953 331636001259 NusA N-terminal domain; Region: NusA_N; pfam08529 331636001260 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 331636001261 RNA binding site [nucleotide binding]; other site 331636001262 homodimer interface [polypeptide binding]; other site 331636001263 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; cl00098 331636001264 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 331636001265 G-X-X-G motif; other site 331636001266 DNA repair protein RAD51 homolog; Provisional; Region: PLN03186 331636001267 ribosomal protein S1; Region: rpsA; TIGR00717 331636001268 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 331636001269 RNA binding site [nucleotide binding]; other site 331636001270 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 331636001271 RNA binding site [nucleotide binding]; other site 331636001272 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 331636001273 RNA binding site [nucleotide binding]; other site 331636001274 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 331636001275 RNA binding site [nucleotide binding]; other site 331636001276 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 331636001277 RNA binding site [nucleotide binding]; other site 331636001278 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 331636001279 RNA binding site [nucleotide binding]; other site 331636001280 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 331636001281 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 331636001282 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 331636001283 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 331636001284 chromosomal replication initiation protein; Provisional; Region: PRK12422 331636001285 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331636001286 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 331636001287 Walker A motif; other site 331636001288 ATP binding site [chemical binding]; other site 331636001289 Walker B motif; other site 331636001290 arginine finger; other site 331636001291 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 331636001292 DnaA box-binding interface [nucleotide binding]; other site 331636001293 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 331636001294 homodimer interface [polypeptide binding]; other site 331636001295 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 331636001296 active site pocket [active] 331636001297 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 331636001298 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 331636001299 E3 interaction surface; other site 331636001300 lipoyl attachment site [posttranslational modification]; other site 331636001301 e3 binding domain; Region: E3_binding; pfam02817 331636001302 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 331636001303 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 331636001304 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 331636001305 alpha subunit interface [polypeptide binding]; other site 331636001306 TPP binding site [chemical binding]; other site 331636001307 heterodimer interface [polypeptide binding]; other site 331636001308 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636001309 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 331636001310 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 331636001311 tetramer interface [polypeptide binding]; other site 331636001312 TPP-binding site [chemical binding]; other site 331636001313 heterodimer interface [polypeptide binding]; other site 331636001314 phosphorylation loop region [posttranslational modification] 331636001315 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 331636001316 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 331636001317 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 331636001318 trimer interface [polypeptide binding]; other site 331636001319 active site 331636001320 UDP-GlcNAc binding site [chemical binding]; other site 331636001321 lipid binding site [chemical binding]; lipid-binding site 331636001322 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 331636001323 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 331636001324 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001325 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001326 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001327 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001328 Surface antigen; Region: Bac_surface_Ag; cl03097 331636001329 recombination protein RecR; Reviewed; Region: recR; PRK00076 331636001330 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 331636001331 putative active site [active] 331636001332 putative metal-binding site [ion binding]; other site 331636001333 tetramer interface [polypeptide binding]; other site 331636001334 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 331636001335 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 331636001336 dimer interface [polypeptide binding]; other site 331636001337 active site 331636001338 CoA binding pocket [chemical binding]; other site 331636001339 Acyl transferase domain; Region: Acyl_transf_1; cl08282 331636001340 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 331636001341 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 331636001342 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 331636001343 NAD(P) binding site [chemical binding]; other site 331636001344 homotetramer interface [polypeptide binding]; other site 331636001345 homodimer interface [polypeptide binding]; other site 331636001346 active site 331636001347 Phosphopantetheine attachment site; Region: PP-binding; cl09936 331636001348 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 331636001349 ligand binding site [chemical binding]; other site 331636001350 flexible hinge region; other site 331636001351 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 331636001352 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 331636001353 Na2 binding site [ion binding]; other site 331636001354 putative substrate binding site 1 [chemical binding]; other site 331636001355 Na binding site 1 [ion binding]; other site 331636001356 putative substrate binding site 2 [chemical binding]; other site 331636001357 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 331636001358 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 331636001359 MgtE intracellular N domain; Region: MgtE_N; cl15244 331636001360 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 331636001361 Divalent cation transporter; Region: MgtE; cl00786 331636001362 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 331636001363 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 331636001364 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 331636001365 putative active site; other site 331636001366 catalytic residue [active] 331636001367 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 331636001368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001369 Walker A/P-loop; other site 331636001370 ATP binding site [chemical binding]; other site 331636001371 Q-loop/lid; other site 331636001372 ABC transporter signature motif; other site 331636001373 Walker B; other site 331636001374 D-loop; other site 331636001375 H-loop/switch region; other site 331636001376 NIL domain; Region: NIL; cl09633 331636001377 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 331636001378 NMT1-like family; Region: NMT1_2; cl15260 331636001379 Protein of unknown function (DUF721); Region: DUF721; cl02324 331636001380 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 331636001381 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 331636001382 ATP binding site [chemical binding]; other site 331636001383 Mg2+ binding site [ion binding]; other site 331636001384 G-X-G motif; other site 331636001385 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 331636001386 anchoring element; other site 331636001387 dimer interface [polypeptide binding]; other site 331636001388 ATP binding site [chemical binding]; other site 331636001389 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 331636001390 active site 331636001391 putative metal-binding site [ion binding]; other site 331636001392 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331636001393 DNA gyrase, A subunit; Region: gyrA; TIGR01063 331636001394 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 331636001395 CAP-like domain; other site 331636001396 active site 331636001397 primary dimer interface [polypeptide binding]; other site 331636001398 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001399 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001400 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001401 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001402 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001403 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001404 thymidylate kinase; Validated; Region: tmk; PRK00698 331636001405 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 331636001406 TMP-binding site; other site 331636001407 ATP-binding site [chemical binding]; other site 331636001408 DNA polymerase III subunit delta'; Validated; Region: PRK05917 331636001409 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 331636001410 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 331636001411 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 331636001412 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 331636001413 active site 331636001414 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 331636001415 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 331636001416 HOOK protein; Region: HOOK; pfam05622 331636001417 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 331636001418 UbiA prenyltransferase family; Region: UbiA; cl00337 331636001419 aromatic acid decarboxylase; Validated; Region: PRK05920 331636001420 Flavoprotein; Region: Flavoprotein; cl08021 331636001421 Uncharacterized conserved protein [Function unknown]; Region: COG1284 331636001422 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 331636001423 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 331636001424 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 331636001425 Survival protein SurE; Region: SurE; cl00448 331636001426 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 331636001427 Ligand Binding Site [chemical binding]; other site 331636001428 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 331636001429 SEC-C motif; Region: SEC-C; pfam02810 331636001430 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 331636001431 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331636001432 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 331636001433 FeS/SAM binding site; other site 331636001434 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 331636001435 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 331636001436 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 331636001437 FtsX-like permease family; Region: FtsX; cl15850 331636001438 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 331636001439 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 331636001440 Walker A/P-loop; other site 331636001441 ATP binding site [chemical binding]; other site 331636001442 Q-loop/lid; other site 331636001443 ABC transporter signature motif; other site 331636001444 Walker B; other site 331636001445 D-loop; other site 331636001446 H-loop/switch region; other site 331636001447 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001448 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 331636001449 23S rRNA interface [nucleotide binding]; other site 331636001450 L3 interface [polypeptide binding]; other site 331636001451 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 331636001452 NlpC/P60 family; Region: NLPC_P60; cl11438 331636001453 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 331636001454 adenylate kinase; Reviewed; Region: adk; PRK00279 331636001455 AMP-binding site [chemical binding]; other site 331636001456 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 331636001457 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 331636001458 putative active site [active] 331636001459 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 331636001460 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 331636001461 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 331636001462 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331636001463 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331636001464 peptide binding site [polypeptide binding]; other site 331636001465 UGMP family protein; Validated; Region: PRK09604 331636001466 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 331636001467 arginine repressor; Region: argR_whole; TIGR01529 331636001468 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 331636001469 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 331636001470 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331636001471 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 331636001472 dimer interface [polypeptide binding]; other site 331636001473 conserved gate region; other site 331636001474 putative PBP binding loops; other site 331636001475 ABC-ATPase subunit interface; other site 331636001476 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 331636001477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001478 Walker A/P-loop; other site 331636001479 ATP binding site [chemical binding]; other site 331636001480 Q-loop/lid; other site 331636001481 ABC transporter signature motif; other site 331636001482 Walker B; other site 331636001483 D-loop; other site 331636001484 H-loop/switch region; other site 331636001485 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 331636001486 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 331636001487 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 331636001488 S-adenosylmethionine binding site [chemical binding]; other site 331636001489 IncA protein; Region: IncA; pfam04156 331636001490 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 331636001491 dimer interface [polypeptide binding]; other site 331636001492 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 331636001493 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 331636001494 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 331636001495 substrate binding site [chemical binding]; other site 331636001496 hexamer interface [polypeptide binding]; other site 331636001497 metal binding site [ion binding]; metal-binding site 331636001498 elongation factor P; Provisional; Region: PRK12426 331636001499 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331636001500 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 331636001501 RNA binding site [nucleotide binding]; other site 331636001502 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 331636001503 RNA binding site [nucleotide binding]; other site 331636001504 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 331636001505 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 331636001506 carboxyltransferase (CT) interaction site; other site 331636001507 biotinylation site [posttranslational modification]; other site 331636001508 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 331636001509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 331636001510 ATP-grasp domain; Region: ATP-grasp_4; cl03087 331636001511 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 331636001512 Family of unknown function (DUF648); Region: DUF648; pfam04890 331636001513 Family of unknown function (DUF648); Region: DUF648; pfam04890 331636001514 Family of unknown function (DUF648); Region: DUF648; pfam04890 331636001515 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001516 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 331636001517 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 331636001518 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 331636001519 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 331636001520 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 331636001521 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 331636001522 MAC/Perforin domain; Region: MACPF; cl02616 331636001523 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 331636001524 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 331636001525 active site 331636001526 GMP synthase; Reviewed; Region: guaA; PRK00074 331636001527 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 331636001528 AMP/PPi binding site [chemical binding]; other site 331636001529 candidate oxyanion hole; other site 331636001530 catalytic triad [active] 331636001531 potential glutamine specificity residues [chemical binding]; other site 331636001532 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 331636001533 ATP Binding subdomain [chemical binding]; other site 331636001534 Ligand Binding sites [chemical binding]; other site 331636001535 Dimerization subdomain; other site 331636001536 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 331636001537 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 331636001538 active site 331636001539 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 331636001540 putative active site pocket [active] 331636001541 dimerization interface [polypeptide binding]; other site 331636001542 putative catalytic residue [active] 331636001543 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 331636001544 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 331636001545 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 331636001546 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 331636001547 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636001548 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 331636001549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001550 Walker A/P-loop; other site 331636001551 ATP binding site [chemical binding]; other site 331636001552 Q-loop/lid; other site 331636001553 ABC transporter signature motif; other site 331636001554 Walker B; other site 331636001555 D-loop; other site 331636001556 H-loop/switch region; other site 331636001557 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 331636001558 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 331636001559 Ligand binding site; other site 331636001560 oligomer interface; other site 331636001561 CTP synthetase; Validated; Region: pyrG; PRK05380 331636001562 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 331636001563 Catalytic site [active] 331636001564 active site 331636001565 UTP binding site [chemical binding]; other site 331636001566 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 331636001567 active site 331636001568 putative oxyanion hole; other site 331636001569 catalytic triad [active] 331636001570 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 331636001571 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 331636001572 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331636001573 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331636001574 peptide binding site [polypeptide binding]; other site 331636001575 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 331636001576 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331636001577 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 331636001578 dimer interface [polypeptide binding]; other site 331636001579 conserved gate region; other site 331636001580 putative PBP binding loops; other site 331636001581 ABC-ATPase subunit interface; other site 331636001582 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 331636001583 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331636001584 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 331636001585 dimer interface [polypeptide binding]; other site 331636001586 conserved gate region; other site 331636001587 putative PBP binding loops; other site 331636001588 ABC-ATPase subunit interface; other site 331636001589 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 331636001590 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 331636001591 Walker A/P-loop; other site 331636001592 ATP binding site [chemical binding]; other site 331636001593 Q-loop/lid; other site 331636001594 ABC transporter signature motif; other site 331636001595 Walker B; other site 331636001596 D-loop; other site 331636001597 H-loop/switch region; other site 331636001598 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636001599 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 331636001600 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 331636001601 Walker A/P-loop; other site 331636001602 ATP binding site [chemical binding]; other site 331636001603 Q-loop/lid; other site 331636001604 ABC transporter signature motif; other site 331636001605 Walker B; other site 331636001606 D-loop; other site 331636001607 H-loop/switch region; other site 331636001608 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636001609 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 331636001610 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331636001611 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 331636001612 transmembrane helices; other site 331636001613 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 331636001614 active site 331636001615 ADP/pyrophosphate binding site [chemical binding]; other site 331636001616 dimerization interface [polypeptide binding]; other site 331636001617 allosteric effector site; other site 331636001618 fructose-1,6-bisphosphate binding site; other site 331636001619 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331636001620 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 331636001621 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 331636001622 active site 331636001623 ADP/pyrophosphate binding site [chemical binding]; other site 331636001624 dimerization interface [polypeptide binding]; other site 331636001625 allosteric effector site; other site 331636001626 fructose-1,6-bisphosphate binding site; other site 331636001627 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 331636001628 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 331636001629 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 331636001630 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 331636001631 HIGH motif; other site 331636001632 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331636001633 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636001634 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636001635 active site 331636001636 KMSKS motif; other site 331636001637 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 331636001638 tRNA binding surface [nucleotide binding]; other site 331636001639 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331636001640 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331636001641 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 331636001642 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 331636001643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001644 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 331636001645 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 331636001646 nucleotide binding pocket [chemical binding]; other site 331636001647 K-X-D-G motif; other site 331636001648 catalytic site [active] 331636001649 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 331636001650 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 331636001651 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 331636001652 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 331636001653 Dimer interface [polypeptide binding]; other site 331636001654 BRCT sequence motif; other site 331636001655 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331636001656 active site 331636001657 ATP binding site [chemical binding]; other site 331636001658 substrate binding site [chemical binding]; other site 331636001659 activation loop (A-loop); other site 331636001660 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 331636001661 IncA protein; Region: IncA; pfam04156 331636001662 Uncharacterized conserved protein [Function unknown]; Region: COG2912 331636001663 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 331636001664 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 331636001665 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 331636001666 TPR motif; other site 331636001667 binding surface 331636001668 adhesin; Provisional; Region: PRK09752 331636001669 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636001670 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636001671 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636001672 adhesin; Provisional; Region: PRK09752 331636001673 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636001674 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636001675 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636001676 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 331636001677 Clp amino terminal domain; Region: Clp_N; pfam02861 331636001678 Clp amino terminal domain; Region: Clp_N; pfam02861 331636001679 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 331636001680 Walker A motif; other site 331636001681 ATP binding site [chemical binding]; other site 331636001682 Walker B motif; other site 331636001683 arginine finger; other site 331636001684 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 331636001685 Walker A motif; other site 331636001686 ATP binding site [chemical binding]; other site 331636001687 Walker B motif; other site 331636001688 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 331636001689 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 331636001690 mce related protein; Region: MCE; pfam02470 331636001691 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 331636001692 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001693 Walker A/P-loop; other site 331636001694 ATP binding site [chemical binding]; other site 331636001695 Q-loop/lid; other site 331636001696 ABC transporter signature motif; other site 331636001697 Walker B; other site 331636001698 D-loop; other site 331636001699 H-loop/switch region; other site 331636001700 Permease; Region: Permease; cl00510 331636001701 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 331636001702 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 331636001703 inhibitor-cofactor binding pocket; inhibition site 331636001704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636001705 catalytic residue [active] 331636001706 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 331636001707 Bifunctional nuclease; Region: DNase-RNase; cl00553 331636001708 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 331636001709 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331636001710 active site 331636001711 dimer interface [polypeptide binding]; other site 331636001712 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001713 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001714 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001715 Uncharacterized conserved protein [Function unknown]; Region: COG0327 331636001716 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 331636001717 oligoendopeptidase F; Region: pepF; TIGR00181 331636001718 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 331636001719 active site 331636001720 Zn binding site [ion binding]; other site 331636001721 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 331636001722 oligomerisation interface [polypeptide binding]; other site 331636001723 mobile loop; other site 331636001724 roof hairpin; other site 331636001725 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331636001726 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 331636001727 ring oligomerisation interface [polypeptide binding]; other site 331636001728 ATP/Mg binding site [chemical binding]; other site 331636001729 stacking interactions; other site 331636001730 hinge regions; other site 331636001731 Uncharacterized conserved protein [Function unknown]; Region: COG4285 331636001732 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 331636001733 conserved cys residue [active] 331636001734 EamA-like transporter family; Region: EamA; cl01037 331636001735 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 331636001736 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001737 Family description; Region: UvrD_C_2; cl15862 331636001738 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 331636001739 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 331636001740 active site 331636001741 HIGH motif; other site 331636001742 KMSKS motif; other site 331636001743 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 331636001744 tRNA binding surface [nucleotide binding]; other site 331636001745 anticodon binding site; other site 331636001746 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 331636001747 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 331636001748 catalytic site [active] 331636001749 G-X2-G-X-G-K; other site 331636001750 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 331636001751 RNA/DNA hybrid binding site [nucleotide binding]; other site 331636001752 active site 331636001753 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 331636001754 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 331636001755 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 331636001756 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 331636001757 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 331636001758 signal recognition particle protein; Provisional; Region: PRK10867 331636001759 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 331636001760 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 331636001761 P loop; other site 331636001762 GTP binding site [chemical binding]; other site 331636001763 Signal peptide binding domain; Region: SRP_SPB; pfam02978 331636001764 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 331636001765 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 331636001766 S-adenosylmethionine binding site [chemical binding]; other site 331636001767 peptide chain release factor 1; Validated; Region: prfA; PRK00591 331636001768 RF-1 domain; Region: RF-1; cl02875 331636001769 RF-1 domain; Region: RF-1; cl02875 331636001770 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 331636001771 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 331636001772 Catalytic site [active] 331636001773 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 331636001774 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 331636001775 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 331636001776 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331636001777 HIGH motif; other site 331636001778 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331636001779 active site 331636001780 KMSKS motif; other site 331636001781 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 331636001782 tRNA binding surface [nucleotide binding]; other site 331636001783 anticodon binding site; other site 331636001784 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 331636001785 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 331636001786 putative active site [active] 331636001787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001788 Bacterial SH3 domain; Region: SH3_3; cl02551 331636001789 Bacterial SH3 domain; Region: SH3_3; cl02551 331636001790 BNR repeat-like domain; Region: BNR_2; pfam13088 331636001791 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 331636001792 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 331636001793 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 331636001794 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 331636001795 Uncharacterized conserved protein [Function unknown]; Region: COG1624 331636001796 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 331636001797 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 331636001798 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 331636001799 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 331636001800 putative acyl-acceptor binding pocket; other site 331636001801 pyruvate kinase; Provisional; Region: PRK05826 331636001802 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 331636001803 domain interfaces; other site 331636001804 active site 331636001805 excinuclease ABC subunit A; Provisional; Region: PRK00635 331636001806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001807 Walker A/P-loop; other site 331636001808 ATP binding site [chemical binding]; other site 331636001809 Q-loop/lid; other site 331636001810 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 331636001811 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 331636001812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001813 Walker A/P-loop; other site 331636001814 ATP binding site [chemical binding]; other site 331636001815 Q-loop/lid; other site 331636001816 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001817 ABC transporter signature motif; other site 331636001818 Walker B; other site 331636001819 D-loop; other site 331636001820 H-loop/switch region; other site 331636001821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001822 Walker A/P-loop; other site 331636001823 ATP binding site [chemical binding]; other site 331636001824 Q-loop/lid; other site 331636001825 ABC transporter signature motif; other site 331636001826 Walker B; other site 331636001827 D-loop; other site 331636001828 H-loop/switch region; other site 331636001829 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 331636001830 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331636001831 active site 331636001832 ATP binding site [chemical binding]; other site 331636001833 substrate binding site [chemical binding]; other site 331636001834 activation loop (A-loop); other site 331636001835 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 331636001836 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 331636001837 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636001838 active site 331636001839 HIGH motif; other site 331636001840 nucleotide binding site [chemical binding]; other site 331636001841 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331636001842 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 331636001843 active site 331636001844 KMSKS motif; other site 331636001845 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 331636001846 tRNA binding surface [nucleotide binding]; other site 331636001847 anticodon binding site; other site 331636001848 V-type ATP synthase subunit K; Provisional; Region: PRK09621 331636001849 ATP synthase subunit C; Region: ATP-synt_C; cl00466 331636001850 V-type ATP synthase subunit I; Validated; Region: PRK05771 331636001851 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 331636001852 ATP synthase subunit D; Region: ATP-synt_D; cl00613 331636001853 V-type ATP synthase subunit B; Provisional; Region: PRK02118 331636001854 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 331636001855 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 331636001856 Walker A motif homologous position; other site 331636001857 Walker B motif; other site 331636001858 V-type ATP synthase subunit A; Provisional; Region: PRK04192 331636001859 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 331636001860 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 331636001861 Walker A motif/ATP binding site; other site 331636001862 Walker B motif; other site 331636001863 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 331636001864 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 331636001865 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 331636001866 transaldolase-like protein; Provisional; Region: PTZ00411 331636001867 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 331636001868 active site 331636001869 dimer interface [polypeptide binding]; other site 331636001870 catalytic residue [active] 331636001871 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 331636001872 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 331636001873 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 331636001874 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 331636001875 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 331636001876 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 331636001877 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 331636001878 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 331636001879 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 331636001880 DNA binding site [nucleotide binding] 331636001881 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 331636001882 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 331636001883 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 331636001884 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 331636001885 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 331636001886 RPB12 interaction site [polypeptide binding]; other site 331636001887 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 331636001888 RPB11 interaction site [polypeptide binding]; other site 331636001889 RPB12 interaction site [polypeptide binding]; other site 331636001890 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 331636001891 RPB3 interaction site [polypeptide binding]; other site 331636001892 RPB1 interaction site [polypeptide binding]; other site 331636001893 RPB11 interaction site [polypeptide binding]; other site 331636001894 RPB10 interaction site [polypeptide binding]; other site 331636001895 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 331636001896 L11 interface [polypeptide binding]; other site 331636001897 putative EF-Tu interaction site [polypeptide binding]; other site 331636001898 putative EF-G interaction site [polypeptide binding]; other site 331636001899 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 331636001900 23S rRNA interface [nucleotide binding]; other site 331636001901 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 331636001902 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 331636001903 mRNA/rRNA interface [nucleotide binding]; other site 331636001904 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 331636001905 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 331636001906 23S rRNA interface [nucleotide binding]; other site 331636001907 L7/L12 interface [polypeptide binding]; other site 331636001908 putative thiostrepton binding site; other site 331636001909 L25 interface [polypeptide binding]; other site 331636001910 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 331636001911 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 331636001912 putative homodimer interface [polypeptide binding]; other site 331636001913 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 331636001914 elongation factor Tu; Reviewed; Region: PRK12735 331636001915 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 331636001916 G1 box; other site 331636001917 GEF interaction site [polypeptide binding]; other site 331636001918 GTP/Mg2+ binding site [chemical binding]; other site 331636001919 Switch I region; other site 331636001920 G2 box; other site 331636001921 G3 box; other site 331636001922 Switch II region; other site 331636001923 G4 box; other site 331636001924 G5 box; other site 331636001925 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 331636001926 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 331636001927 Antibiotic Binding Site [chemical binding]; other site 331636001928 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 331636001929 rRNA binding site [nucleotide binding]; other site 331636001930 predicted 30S ribosome binding site; other site 331636001931 Fe-S metabolism associated domain; Region: SufE; cl00951 331636001932 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 331636001933 Protein of unknown function (DUF687); Region: DUF687; pfam05095 331636001934 dihydrodipicolinate synthase; Region: dapA; TIGR00674 331636001935 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 331636001936 dimer interface [polypeptide binding]; other site 331636001937 active site 331636001938 catalytic residue [active] 331636001939 aspartate kinase; Provisional; Region: PRK05925 331636001940 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 331636001941 putative catalytic residues [active] 331636001942 nucleotide binding site [chemical binding]; other site 331636001943 aspartate binding site [chemical binding]; other site 331636001944 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 331636001945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001946 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 331636001947 dihydrodipicolinate reductase; Provisional; Region: PRK00048 331636001948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001949 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 331636001950 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cl01244 331636001951 cofactor binding site; other site 331636001952 metal binding site [ion binding]; metal-binding site 331636001953 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 331636001954 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 331636001955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001956 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 331636001957 NAD(P) binding site [chemical binding]; other site 331636001958 active site 331636001959 biotin synthase; Region: bioB; TIGR00433 331636001960 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 331636001961 FeS/SAM binding site; other site 331636001962 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 331636001963 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 331636001964 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 331636001965 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636001966 catalytic residue [active] 331636001967 AAA domain; Region: AAA_26; pfam13500 331636001968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001969 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 331636001970 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 331636001971 inhibitor-cofactor binding pocket; inhibition site 331636001972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636001973 catalytic residue [active] 331636001974 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 331636001975 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 331636001976 hinge; other site 331636001977 active site 331636001978 shikimate kinase; Provisional; Region: PRK00625 331636001979 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 331636001980 ADP binding site [chemical binding]; other site 331636001981 magnesium binding site [ion binding]; other site 331636001982 putative shikimate binding site; other site 331636001983 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 331636001984 Tetramer interface [polypeptide binding]; other site 331636001985 active site 331636001986 FMN-binding site [chemical binding]; other site 331636001987 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 331636001988 active site 331636001989 dimer interface [polypeptide binding]; other site 331636001990 metal binding site [ion binding]; metal-binding site 331636001991 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 331636001992 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 331636001993 active site 331636001994 catalytic residue [active] 331636001995 dimer interface [polypeptide binding]; other site 331636001996 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 331636001997 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 331636001998 shikimate binding site; other site 331636001999 NAD(P) binding site [chemical binding]; other site 331636002000 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636002001 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 331636002002 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 331636002003 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 331636002004 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 331636002005 Spore germination protein; Region: Spore_permease; cl15802 331636002006 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 331636002007 malate dehydrogenase; Provisional; Region: PRK05442 331636002008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002009 NAD(P) binding site [chemical binding]; other site 331636002010 LDH/MDH dimer interface [polypeptide binding]; other site 331636002011 substrate binding site [chemical binding]; other site 331636002012 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 331636002013 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 331636002014 active site 331636002015 dimer interface [polypeptide binding]; other site 331636002016 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 331636002017 dimer interface [polypeptide binding]; other site 331636002018 active site 331636002019 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 331636002020 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 331636002021 active site 331636002022 DNA binding site [nucleotide binding] 331636002023 Int/Topo IB signature motif; other site 331636002024 Protein of unknown function (DUF342); Region: DUF342; pfam03961 331636002025 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331636002026 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331636002027 Methyltransferase domain; Region: Methyltransf_31; pfam13847 331636002028 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; cl16911 331636002029 LytB protein; Region: LYTB; cl00507 331636002030 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 331636002031 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 331636002032 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 331636002033 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 331636002034 Active site serine [active] 331636002035 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 331636002036 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 331636002037 transmembrane helices; other site 331636002038 high affinity sulphate transporter 1; Region: sulP; TIGR00815 331636002039 Sulfate transporter family; Region: Sulfate_transp; cl15842 331636002040 Sulfate transporter family; Region: Sulfate_transp; cl15842 331636002041 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 331636002042 fumarate hydratase; Reviewed; Region: fumC; PRK00485 331636002043 Class II fumarases; Region: Fumarase_classII; cd01362 331636002044 active site 331636002045 tetramer interface [polypeptide binding]; other site 331636002046 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 331636002047 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 331636002048 dimer interface [polypeptide binding]; other site 331636002049 conserved gate region; other site 331636002050 putative PBP binding loops; other site 331636002051 ABC-ATPase subunit interface; other site 331636002052 NMT1/THI5 like; Region: NMT1; pfam09084 331636002053 NMT1-like family; Region: NMT1_2; cl15260 331636002054 adenylate kinases; Region: adk; TIGR01351 331636002055 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 331636002056 AMP-binding site [chemical binding]; other site 331636002057 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 331636002058 MarC family integral membrane protein; Region: MarC; cl00919 331636002059 MarC family integral membrane protein; Region: MarC; cl00919 331636002060 methionine aminopeptidase; Provisional; Region: PRK12318 331636002061 SEC-C motif; Region: SEC-C; pfam02810 331636002062 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 331636002063 active site 331636002064 Erg28 like protein; Region: Erg28; pfam03694 331636002065 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331636002066 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331636002067 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331636002068 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 331636002069 nucleoside/Zn binding site; other site 331636002070 dimer interface [polypeptide binding]; other site 331636002071 catalytic motif [active] 331636002072 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 331636002073 16S/18S rRNA binding site [nucleotide binding]; other site 331636002074 S13e-L30e interaction site [polypeptide binding]; other site 331636002075 25S rRNA binding site [nucleotide binding]; other site 331636002076 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 331636002077 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 331636002078 RNase E interface [polypeptide binding]; other site 331636002079 trimer interface [polypeptide binding]; other site 331636002080 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 331636002081 RNase E interface [polypeptide binding]; other site 331636002082 trimer interface [polypeptide binding]; other site 331636002083 active site 331636002084 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 331636002085 putative nucleic acid binding region [nucleotide binding]; other site 331636002086 G-X-X-G motif; other site 331636002087 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 331636002088 RNA binding site [nucleotide binding]; other site 331636002089 domain interface; other site 331636002090 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 331636002091 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 331636002092 Walker A motif; other site 331636002093 ATP binding site [chemical binding]; other site 331636002094 Walker B motif; other site 331636002095 arginine finger; other site 331636002096 Peptidase family M41; Region: Peptidase_M41; pfam01434 331636002097 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 331636002098 Ligand Binding Site [chemical binding]; other site 331636002099 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 331636002100 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331636002101 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 331636002102 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331636002103 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 331636002104 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 331636002105 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 331636002106 motif 1; other site 331636002107 dimer interface [polypeptide binding]; other site 331636002108 active site 331636002109 motif 2; other site 331636002110 motif 3; other site 331636002111 ribosomal protein L20; Region: rpl20; CHL00068 331636002112 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 331636002113 23S rRNA binding site [nucleotide binding]; other site 331636002114 L21 binding site [polypeptide binding]; other site 331636002115 L13 binding site [polypeptide binding]; other site 331636002116 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 331636002117 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 331636002118 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 331636002119 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 331636002120 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 331636002121 putative RNA binding site [nucleotide binding]; other site 331636002122 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 331636002123 FAD binding domain; Region: FAD_binding_4; pfam01565 331636002124 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 331636002125 hypothetical protein; Provisional; Region: PRK08317 331636002126 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; cl16911 331636002127 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 331636002128 dimer interface [polypeptide binding]; other site 331636002129 putative radical transfer pathway; other site 331636002130 diiron center [ion binding]; other site 331636002131 tyrosyl radical; other site 331636002132 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 331636002133 ATP cone domain; Region: ATP-cone; pfam03477 331636002134 ATP cone domain; Region: ATP-cone; pfam03477 331636002135 ATP cone domain; Region: ATP-cone; pfam03477 331636002136 Class I ribonucleotide reductase; Region: RNR_I; cd01679 331636002137 active site 331636002138 dimer interface [polypeptide binding]; other site 331636002139 catalytic residues [active] 331636002140 effector binding site; other site 331636002141 R2 peptide binding site; other site 331636002142 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636002143 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 331636002144 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636002145 RmuC family; Region: RmuC; pfam02646 331636002146 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 331636002147 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331636002148 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002149 Peptidase M16C associated; Region: M16C_assoc; pfam08367 331636002150 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002151 hypothetical protein; Provisional; Region: PRK08201 331636002152 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 331636002153 metal binding site [ion binding]; metal-binding site 331636002154 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 331636002155 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 331636002156 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 331636002157 protein binding site [polypeptide binding]; other site 331636002158 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 331636002159 protein binding site [polypeptide binding]; other site 331636002160 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 331636002161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002162 CoA-ligase; Region: Ligase_CoA; cl02894 331636002163 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 331636002164 ATP-grasp domain; Region: ATP-grasp_4; cl03087 331636002165 CoA-ligase; Region: Ligase_CoA; cl02894 331636002166 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 331636002167 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 331636002168 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 331636002169 P loop; other site 331636002170 GTP binding site [chemical binding]; other site 331636002171 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 331636002172 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 331636002173 aromatic amino acid transport protein; Region: araaP; TIGR00837 331636002174 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 331636002175 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 331636002176 glutaminase active site [active] 331636002177 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 331636002178 dimer interface [polypeptide binding]; other site 331636002179 active site 331636002180 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 331636002181 dimer interface [polypeptide binding]; other site 331636002182 active site 331636002183 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 331636002184 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 331636002185 active site 331636002186 substrate binding site [chemical binding]; other site 331636002187 metal binding site [ion binding]; metal-binding site 331636002188 poly(A) polymerase; Region: pcnB; TIGR01942 331636002189 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331636002190 active site 331636002191 NTP binding site [chemical binding]; other site 331636002192 metal binding triad [ion binding]; metal-binding site 331636002193 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331636002194 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 331636002195 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 331636002196 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 331636002197 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 331636002198 IncA protein; Region: IncA; pfam04156 331636002199 IncA protein; Region: IncA; pfam04156 331636002200 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 331636002201 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002202 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002203 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002204 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002205 IncA protein; Region: IncA; pfam04156 331636002206 IncA protein; Region: IncA; pfam04156 331636002207 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002208 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331636002209 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002210 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002211 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331636002212 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002213 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331636002214 adhesin; Provisional; Region: PRK09752 331636002215 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636002216 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 331636002217 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 331636002218 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 331636002219 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 331636002220 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 331636002221 homodimer interface [polypeptide binding]; other site 331636002222 oligonucleotide binding site [chemical binding]; other site 331636002223 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT; Region: LPLAT_GPAT; cd07985 331636002224 putative G3P-binding pocket; other site 331636002225 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 331636002226 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331636002227 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002228 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002229 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 331636002230 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 331636002231 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 331636002232 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 331636002233 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 331636002234 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 331636002235 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 331636002236 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 331636002237 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 331636002238 putative active site [active] 331636002239 catalytic residue [active] 331636002240 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 331636002241 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 331636002242 5S rRNA interface [nucleotide binding]; other site 331636002243 CTC domain interface [polypeptide binding]; other site 331636002244 L16 interface [polypeptide binding]; other site 331636002245 glycogen synthase; Provisional; Region: glgA; PRK00654 331636002246 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 331636002247 ADP-binding pocket [chemical binding]; other site 331636002248 homodimer interface [polypeptide binding]; other site 331636002249 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636002250 glycyl-tRNA synthetase; Provisional; Region: PRK14908 331636002251 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 331636002252 dimer interface [polypeptide binding]; other site 331636002253 motif 1; other site 331636002254 active site 331636002255 motif 2; other site 331636002256 motif 3; other site 331636002257 DNA primase; Validated; Region: dnaG; PRK05667 331636002258 CHC2 zinc finger; Region: zf-CHC2; cl15369 331636002259 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 331636002260 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 331636002261 active site 331636002262 metal binding site [ion binding]; metal-binding site 331636002263 interdomain interaction site; other site 331636002264 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 331636002265 MutS domain I; Region: MutS_I; pfam01624 331636002266 MutS domain II; Region: MutS_II; pfam05188 331636002267 MutS family domain IV; Region: MutS_IV; pfam05190 331636002268 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 331636002269 Walker A/P-loop; other site 331636002270 ATP binding site [chemical binding]; other site 331636002271 Q-loop/lid; other site 331636002272 ABC transporter signature motif; other site 331636002273 Walker B; other site 331636002274 D-loop; other site 331636002275 H-loop/switch region; other site 331636002276 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 331636002277 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 331636002278 GIY-YIG motif/motif A; other site 331636002279 active site 331636002280 catalytic site [active] 331636002281 putative DNA binding site [nucleotide binding]; other site 331636002282 metal binding site [ion binding]; metal-binding site 331636002283 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 331636002284 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 331636002285 Asp23 family; Region: Asp23; cl00574 331636002286 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 331636002287 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 331636002288 Ribonuclease P; Region: Ribonuclease_P; cl00457 331636002289 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636002290 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 331636002291 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331636002292 active site 331636002293 HIGH motif; other site 331636002294 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331636002295 KMSKS motif; other site 331636002296 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331636002297 tRNA binding surface [nucleotide binding]; other site 331636002298 anticodon binding site; other site 331636002299 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 331636002300 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 331636002301 dimer interface [polypeptide binding]; other site 331636002302 putative anticodon binding site; other site 331636002303 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 331636002304 motif 1; other site 331636002305 dimer interface [polypeptide binding]; other site 331636002306 active site 331636002307 motif 2; other site 331636002308 motif 3; other site 331636002309 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636002310 primosome assembly protein PriA; Validated; Region: PRK05580 331636002311 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 331636002312 ATP binding site [chemical binding]; other site 331636002313 putative Mg++ binding site [ion binding]; other site 331636002314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002315 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 331636002316 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636002317 catalytic residue [active] 331636002318 long chain fatty acid--[acyl-carrier-protein] ligase; Validated; Region: PRK06334 331636002319 AMP-binding enzyme; Region: AMP-binding; cl15778 331636002320 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331636002321 putative acyl-acceptor binding pocket; other site 331636002322 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 331636002323 active site 331636002324 putative lithium-binding site [ion binding]; other site 331636002325 substrate binding site [chemical binding]; other site 331636002326 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 331636002327 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 331636002328 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 331636002329 NAD binding site [chemical binding]; other site 331636002330 Phe binding site; other site 331636002331 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 331636002332 dimer interface [polypeptide binding]; other site 331636002333 substrate binding site [chemical binding]; other site 331636002334 metal binding sites [ion binding]; metal-binding site 331636002335 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 331636002336 active site 331636002337 Ap4A binding cleft/pocket [chemical binding]; other site 331636002338 P4 phosphate binding site; other site 331636002339 nudix motif; other site 331636002340 putative P2/P3 phosphate binding site [ion binding]; other site 331636002341 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 331636002342 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 331636002343 dimer interface [polypeptide binding]; other site 331636002344 active site 331636002345 Oligomerisation domain; Region: Oligomerisation; cl00519 331636002346 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636002347 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002348 hypothetical protein; Provisional; Region: PRK05927 331636002349 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 331636002350 FeS/SAM binding site; other site 331636002351 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 331636002352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002353 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 331636002354 anti sigma factor interaction site; other site 331636002355 regulatory phosphorylation site [posttranslational modification]; other site 331636002356 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 331636002357 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 331636002358 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; cl00098 331636002359 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 331636002360 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331636002361 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636002362 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636002363 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 331636002364 ATP-grasp domain; Region: ATP-grasp_4; cl03087 331636002365 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 331636002366 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 331636002367 active site 331636002368 homodimer interface [polypeptide binding]; other site 331636002369 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 331636002370 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636002371 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636002372 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 331636002373 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; cl16911 331636002374 S-adenosylmethionine binding site [chemical binding]; other site 331636002375 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002376 Walker A/P-loop; other site 331636002377 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636002378 ATP binding site [chemical binding]; other site 331636002379 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636002380 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 331636002381 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 331636002382 Mg++ binding site [ion binding]; other site 331636002383 putative catalytic motif [active] 331636002384 putative substrate binding site [chemical binding]; other site 331636002385 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331636002386 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 331636002387 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636002388 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636002389 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 331636002390 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 331636002391 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 331636002392 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331636002393 active site 331636002394 metal binding site [ion binding]; metal-binding site 331636002395 elongation factor P; Validated; Region: PRK00529 331636002396 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331636002397 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 331636002398 RNA binding site [nucleotide binding]; other site 331636002399 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 331636002400 RNA binding site [nucleotide binding]; other site 331636002401 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 331636002402 transketolase; Reviewed; Region: PRK05899 331636002403 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 331636002404 TPP-binding site [chemical binding]; other site 331636002405 dimer interface [polypeptide binding]; other site 331636002406 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 331636002407 PYR/PP interface [polypeptide binding]; other site 331636002408 dimer interface [polypeptide binding]; other site 331636002409 TPP binding site [chemical binding]; other site 331636002410 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636002411 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 331636002412 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 331636002413 motif 1; other site 331636002414 active site 331636002415 motif 2; other site 331636002416 motif 3; other site 331636002417 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 331636002418 DHHA1 domain; Region: DHHA1; pfam02272 331636002419 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 331636002420 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 331636002421 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 331636002422 ATP binding site [chemical binding]; other site 331636002423 putative Mg++ binding site [ion binding]; other site 331636002424 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 331636002425 nucleotide binding region [chemical binding]; other site 331636002426 ATP-binding site [chemical binding]; other site 331636002427 TRCF domain; Region: TRCF; cl04088 331636002428 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 331636002429 substrate binding site [chemical binding]; other site 331636002430 active site 331636002431 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 331636002432 HemN C-terminal domain; Region: HemN_C; pfam06969 331636002433 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 331636002434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002435 Histone H1-like protein Hc1; Region: Hc1; pfam07432 331636002436 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 331636002437 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 331636002438 S-adenosylmethionine binding site [chemical binding]; other site 331636002439 Preprotein translocase subunit; Region: YajC; cl00806 331636002440 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 331636002441 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 331636002442 catalytic loop [active] 331636002443 iron binding site [ion binding]; other site 331636002444 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 331636002445 FAD binding pocket [chemical binding]; other site 331636002446 FAD binding motif [chemical binding]; other site 331636002447 phosphate binding motif [ion binding]; other site 331636002448 beta-alpha-beta structure motif; other site 331636002449 NAD binding pocket [chemical binding]; other site 331636002450 Protein of unknown function (DUF687); Region: DUF687; pfam05095 331636002451 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 331636002452 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 331636002453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002454 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 331636002455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 331636002456 SET domain; Region: SET; cl02566 331636002457 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 331636002458 substrate binding site [chemical binding]; other site 331636002459 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331636002460 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 331636002461 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 331636002462 homopentamer interface [polypeptide binding]; other site 331636002463 active site 331636002464 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 331636002465 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 331636002466 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 331636002467 dimerization interface [polypeptide binding]; other site 331636002468 active site 331636002469 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 331636002470 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 331636002471 catalytic motif [active] 331636002472 Zn binding site [ion binding]; other site 331636002473 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 331636002474 seryl-tRNA synthetase; Provisional; Region: PRK05431 331636002475 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 331636002476 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 331636002477 dimer interface [polypeptide binding]; other site 331636002478 active site 331636002479 motif 1; other site 331636002480 motif 2; other site 331636002481 motif 3; other site 331636002482 CCC1-related protein family; Region: CCC1_like_1; cd02437 331636002483 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 331636002484 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331636002485 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636002486 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 331636002487 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331636002488 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 331636002489 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 331636002490 RNA binding surface [nucleotide binding]; other site 331636002491 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 331636002492 active site 331636002493 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 331636002494 catalytic core [active] 331636002495 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331636002496 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 331636002497 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636002498 catalytic residue [active] 331636002499 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 331636002500 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 331636002501 NifU-like domain; Region: NifU; cl00484 331636002502 type III secretion system protein; Validated; Region: PRK05934 331636002503 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 331636002504 MgtE intracellular N domain; Region: MgtE_N; cl15244 331636002505 flagellar assembly protein H; Validated; Region: fliH; PRK06669 331636002506 type III secretion system ATPase; Validated; Region: PRK05922 331636002507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002508 Walker A motif; other site 331636002509 ATP binding site [chemical binding]; other site 331636002510 Walker B motif; other site 331636002511 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 331636002512 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 331636002513 substrate binding site; other site 331636002514 dimerization interface; other site 331636002515 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 331636002516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002517 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 331636002518 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 331636002519 Effector from type III secretion system; Region: Effector_1; pfam04518 331636002520 Effector from type III secretion system; Region: Effector_1; pfam04518 331636002521 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 331636002522 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 331636002523 active site 331636002524 substrate-binding site [chemical binding]; other site 331636002525 metal-binding site [ion binding] 331636002526 GTP binding site [chemical binding]; other site 331636002527 rod shape-determining protein MreB; Provisional; Region: PRK13927 331636002528 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 331636002529 ATP binding site [chemical binding]; other site 331636002530 profilin binding site; other site 331636002531 gelsolin binding site; other site 331636002532 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 331636002533 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 331636002534 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 331636002535 ATP binding site [chemical binding]; other site 331636002536 putative Mg++ binding site [ion binding]; other site 331636002537 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 331636002538 nucleotide binding region [chemical binding]; other site 331636002539 ATP-binding site [chemical binding]; other site 331636002540 trigger factor; Provisional; Region: tig; PRK01490 331636002541 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 331636002542 Clp protease; Region: CLP_protease; pfam00574 331636002543 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331636002544 oligomer interface [polypeptide binding]; other site 331636002545 active site residues [active] 331636002546 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 331636002547 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 331636002548 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 331636002549 Walker A motif; other site 331636002550 ATP binding site [chemical binding]; other site 331636002551 Walker B motif; other site 331636002552 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 331636002553 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 331636002554 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331636002555 active site 331636002556 NTP binding site [chemical binding]; other site 331636002557 metal binding triad [ion binding]; metal-binding site 331636002558 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331636002559 GTP-binding protein Der; Reviewed; Region: PRK00093 331636002560 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 331636002561 G1 box; other site 331636002562 GTP/Mg2+ binding site [chemical binding]; other site 331636002563 Switch I region; other site 331636002564 G2 box; other site 331636002565 Switch II region; other site 331636002566 G3 box; other site 331636002567 G4 box; other site 331636002568 G5 box; other site 331636002569 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 331636002570 G1 box; other site 331636002571 GTP/Mg2+ binding site [chemical binding]; other site 331636002572 Switch I region; other site 331636002573 G2 box; other site 331636002574 G3 box; other site 331636002575 Switch II region; other site 331636002576 G4 box; other site 331636002577 G5 box; other site 331636002578 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 331636002579 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002580 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 331636002581 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 331636002582 nucleotide binding region [chemical binding]; other site 331636002583 ATP-binding site [chemical binding]; other site 331636002584 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 331636002585 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 331636002586 binding surface 331636002587 TPR motif; other site 331636002588 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 331636002589 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 331636002590 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 331636002591 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 331636002592 trmE is a tRNA modification GTPase; Region: trmE; cd04164 331636002593 G1 box; other site 331636002594 GTP/Mg2+ binding site [chemical binding]; other site 331636002595 Switch I region; other site 331636002596 G2 box; other site 331636002597 Switch II region; other site 331636002598 G3 box; other site 331636002599 G4 box; other site 331636002600 G5 box; other site 331636002601 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 331636002602 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 331636002603 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331636002604 minor groove reading motif; other site 331636002605 helix-hairpin-helix signature motif; other site 331636002606 substrate binding pocket [chemical binding]; other site 331636002607 active site 331636002608 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 331636002609 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 331636002610 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 331636002611 ATP binding site [chemical binding]; other site 331636002612 putative Mg++ binding site [ion binding]; other site 331636002613 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 331636002614 nucleotide binding region [chemical binding]; other site 331636002615 ATP-binding site [chemical binding]; other site 331636002616 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 331636002617 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 331636002618 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331636002619 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331636002620 lipoyl synthase; Provisional; Region: PRK05481 331636002621 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 331636002622 FeS/SAM binding site; other site 331636002623 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 331636002624 type III secretion system protein; Validated; Region: PRK06328 331636002625 Flagellar assembly protein FliH; Region: FliH; pfam02108 331636002626 FliP family; Region: FliP; cl00593 331636002627 FliP family; Region: FliP; cl00593 331636002628 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 331636002629 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 331636002630 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 331636002631 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 331636002632 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 331636002633 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 331636002634 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 331636002635 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 331636002636 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 331636002637 type II secretion system protein E; Region: type_II_gspE; TIGR02533 331636002638 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 331636002639 Walker A motif; other site 331636002640 ATP binding site [chemical binding]; other site 331636002641 Walker B motif; other site 331636002642 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 331636002643 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636002644 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636002645 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331636002646 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 331636002647 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 331636002648 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 331636002649 active site 331636002650 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 331636002651 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 331636002652 ATP binding site [chemical binding]; other site 331636002653 Mg2+ binding site [ion binding]; other site 331636002654 G-X-G motif; other site 331636002655 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 331636002656 ATP binding site [chemical binding]; other site 331636002657 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 331636002658 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331636002659 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331636002660 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 331636002661 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 331636002662 EamA-like transporter family; Region: EamA; cl01037 331636002663 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 331636002664 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 331636002665 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 331636002666 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 331636002667 active site 331636002668 dimer interface [polypeptide binding]; other site 331636002669 motif 1; other site 331636002670 motif 2; other site 331636002671 motif 3; other site 331636002672 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 331636002673 anticodon binding site; other site 331636002674 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 331636002675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002676 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 331636002677 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 331636002678 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 331636002679 active site 331636002680 HIGH motif; other site 331636002681 dimer interface [polypeptide binding]; other site 331636002682 KMSKS motif; other site 331636002683 excinuclease ABC subunit B; Provisional; Region: PRK05298 331636002684 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 331636002685 ATP binding site [chemical binding]; other site 331636002686 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 331636002687 nucleotide binding region [chemical binding]; other site 331636002688 ATP-binding site [chemical binding]; other site 331636002689 Ultra-violet resistance protein B; Region: UvrB; pfam12344 331636002690 UvrB/uvrC motif; Region: UVR; pfam02151 331636002691 enolase; Provisional; Region: eno; PRK00077 331636002692 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 331636002693 dimer interface [polypeptide binding]; other site 331636002694 metal binding site [ion binding]; metal-binding site 331636002695 substrate binding pocket [chemical binding]; other site 331636002696 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 331636002697 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 331636002698 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 331636002699 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 331636002700 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 331636002701 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 331636002702 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 331636002703 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 331636002704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002705 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 331636002706 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 331636002707 putative Iron-sulfur protein interface [polypeptide binding]; other site 331636002708 proximal heme binding site [chemical binding]; other site 331636002709 putative dimer interface [polypeptide binding]; other site 331636002710 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 331636002711 proximal heme binding site [chemical binding]; other site 331636002712 Iron-sulfur protein interface; other site 331636002713 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 331636002714 active site 331636002715 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 331636002716 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 331636002717 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636002718 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 331636002719 DsbD alpha interface [polypeptide binding]; other site 331636002720 catalytic residues [active] 331636002721 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 331636002722 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 331636002723 translocation protein TolB; Provisional; Region: tolB; PRK01029 331636002724 TolB amino-terminal domain; Region: TolB_N; cl00639 331636002725 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331636002726 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331636002727 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331636002728 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331636002729 ligand binding site [chemical binding]; other site 331636002730 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636002732 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 331636002733 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 331636002734 dimer interface [polypeptide binding]; other site 331636002735 decamer (pentamer of dimers) interface [polypeptide binding]; other site 331636002736 catalytic triad [active] 331636002737 peroxidatic and resolving cysteines [active] 331636002738 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331636002739 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 331636002740 ring oligomerisation interface [polypeptide binding]; other site 331636002741 ATP/Mg binding site [chemical binding]; other site 331636002742 stacking interactions; other site 331636002743 hinge regions; other site 331636002744 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 331636002745 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 331636002746 active site 331636002747 dimerization interface [polypeptide binding]; other site 331636002748 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 331636002749 ligand binding site [chemical binding]; other site 331636002750 active site 331636002751 UGI interface [polypeptide binding]; other site 331636002752 catalytic site [active] 331636002753 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 331636002754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002755 Family description; Region: UvrD_C_2; cl15862 331636002756 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 331636002757 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 331636002758 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 331636002759 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 331636002760 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 331636002761 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 331636002762 active site 331636002763 interdomain interaction site; other site 331636002764 putative metal-binding site [ion binding]; other site 331636002765 nucleotide binding site [chemical binding]; other site 331636002766 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 331636002767 domain I; other site 331636002768 DNA binding groove [nucleotide binding] 331636002769 phosphate binding site [ion binding]; other site 331636002770 domain II; other site 331636002771 domain III; other site 331636002772 nucleotide binding site [chemical binding]; other site 331636002773 catalytic site [active] 331636002774 domain IV; other site 331636002775 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331636002776 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331636002777 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331636002778 SWIB/MDM2 domain; Region: SWIB; cl02489 331636002779 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 331636002780 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 331636002781 FMN binding site [chemical binding]; other site 331636002782 active site 331636002783 catalytic residues [active] 331636002784 substrate binding site [chemical binding]; other site 331636002785 YGGT family; Region: YGGT; cl00508 331636002786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331636002787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331636002788 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 331636002789 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 331636002790 protein RecA; Region: tigrfam_recA; TIGR02012 331636002791 hexamer interface [polypeptide binding]; other site 331636002792 Walker A motif; other site 331636002793 ATP binding site [chemical binding]; other site 331636002794 Walker B motif; other site 331636002795 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 331636002796 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 331636002797 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 331636002798 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 331636002799 folate binding site [chemical binding]; other site 331636002800 NADP+ binding site [chemical binding]; other site 331636002801 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 331636002802 catalytic center binding site [active] 331636002803 ATP binding site [chemical binding]; other site 331636002804 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 331636002805 dihydropteroate synthase; Region: DHPS; TIGR01496 331636002806 substrate binding pocket [chemical binding]; other site 331636002807 dimer interface [polypeptide binding]; other site 331636002808 inhibitor binding site; inhibition site 331636002809 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 331636002810 active site 331636002811 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 331636002812 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 331636002813 RNA polymerase sigma factor SigC; Validated; Region: PRK07598 331636002814 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 331636002815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331636002816 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331636002817 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 331636002818 DNA binding residues [nucleotide binding] 331636002819 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 331636002820 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 331636002821 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 331636002822 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002823 Family description; Region: UvrD_C_2; cl15862 331636002824 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 331636002825 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 331636002826 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 331636002827 DNA binding site [nucleotide binding] 331636002828 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 331636002829 putative trimer interface [polypeptide binding]; other site 331636002830 putative CoA binding site [chemical binding]; other site 331636002831 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 331636002832 substrate binding pocket [chemical binding]; other site 331636002833 chain length determination region; other site 331636002834 catalytic residues [active] 331636002835 aspartate-rich region 1; other site 331636002836 substrate-Mg2+ binding site; other site 331636002837 active site lid residues [active] 331636002838 Thymidylate synthase complementing protein; Region: Thy1; cl03630 331636002839 Thymidylate synthase complementing protein; Region: Thy1; cl03630 331636002840 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 331636002841 active site 331636002842 catalytic residues [active] 331636002843 DNA binding site [nucleotide binding] 331636002844 Int/Topo IB signature motif; other site 331636002845 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 331636002846 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 331636002847 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 331636002848 P loop; other site 331636002849 Nucleotide binding site [chemical binding]; other site 331636002850 DTAP/Switch II; other site 331636002851 Switch I; other site 331636002852 Chlamydia virulence protein PGP3-D; Region: Chlam_vir; pfam05475 331636002853 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331636002854 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 331636002855 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 331636002856 Walker A motif; other site 331636002857 ATP binding site [chemical binding]; other site 331636002858 Walker B motif; other site 331636002859 DNA binding loops [nucleotide binding] 331636002860 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 331636002861 active site 331636002862 catalytic residues [active] 331636002863 DNA binding site [nucleotide binding] 331636002864 Int/Topo IB signature motif; other site